Any advice is appreciated. Make an updated SSCCE with the new code. Learn more about the Bioinformatics Specialization (including why we are wearing these crazy outfits) by watching our introductory video. Are you interested in learning how to program (in Python) within a scientific setting? If you're not sure where to start, then work through a tutorial on xyz, go find a book on xyz, see how people have implemented xyz themselves on, You should now be at the point where you’ve tried to implement xyz yourself and you now have a specific question. Ever see a painful-to-read question on a help site where the original poster (OP) asks a question, someone responds asking for more information, OP responds with not enough information, someone else responds asking for further clarification, and so on? Humans are the ones doing the debugging, so writing simple, clear code makes debugging easier. Time is important to most people, and bad questions waste OP’s time and potential respondents' time. When you're soliciting help from a stranger, you need to have a little skin in the game, and this type of question will make it abundantly clear that you haven't put any effort into finding a solution on your own. news for genome hackers. Anybody can ask a question Anybody can answer The best answers are voted up and rise to the top Bioinformatics Beta. If you ask a simple question that can easily be Googled, then you might never get a response or you might get a lot of. ----- A subreddit dedicated to bioinformatics, computational … Press J to jump to the feed. Or close to it anyway. Bioinformatics Stack Exchange is a question and answer site for researchers, developers, students, teachers, and end users interested in bioinformatics. The interviewer recommended me to have a look at rust instead. There are no doubt several suitable books. If you have a specific bioinformatics related question, there is also the question and answer site BioStar and the next generation sequencing community SEQanswers question. Second, have a leading sentence or two about what you're trying to accomplish. However, there is a key point to keep in mind before you ask your question: don't be lazy. The one I am familiar with as it was used in my University is "Introduction to Bioinformatics" by Arthur Lesk (Oxford) 4th ed (2013). This course will cover algorithms for solving various biological problems along with a handful of programming challenges helping you implement these algorithms in Python. Use MathJax to format equations. there really isn't anything anyone can say. If you're doing serious method development then C or C++ too. Thanks for contributing an answer to Bioinformatics Stack Exchange! I'd want a candidate who knows Python/Perl and a bit of R, SQL and bash/unix command line. What about rust for "serious method development" ? Bioinformatics Stack Exchange is a question and answer site for researchers, developers, students, teachers, and end users interested in bioinformatics. I am actually a senior computer science major, so my programming skills are pretty good. Asking a good question makes it much easier for someone to respond since the problem will be clear and example code will be provided. Gene Density • not all of the DNA in a genome encodes protein: bacteria ~90% coding gene/kb human ~1.5% coding gene/35kb . I find myself very stimulated by clinical research studies, i love anatomy and physiology. Since a majority of bioinformatics is computer work, short, self-contained, correct/compilable example (SSCCE), Get a bioinformatics education online for free. Is the output different now? Which languages would you recommend to a student wishing to enter the world of bioinformatics? Learning Bioinformatics #bioinformatics IRC at Freenode Information. Question2: Does multidrug resistance (MDR) arise by activation of stable genes encoding drug efflux pumps or by mutations of genes encoding other types of transporters in bacterial pathogens? what do you mean by most frequently occurring sequences if it's just one fastq file? Generally, all the software packages that are used in Bioinformatics always come with a manual explaining their usage and different features. The type of bioinformatics degree you pursue should be influenced by the type of job that you want. Here is a somewhat recent question where I went into detail about what I would ask in an interview along with a few other answers. There are five key elements that make up a good question. It is the glue which … Rosalind is a platform for learning bioinformatics and programming through problem solving. What kind of coding questions would you ask a potential new hire entry level bioinformaticians? Bioinformatics Interview Questions and Answers will guide us now that Bioinformatics is the application of information technology and computer science to the field of molecular biology. Exons are not limited to the protein coding regions. It only takes a minute to sign up. Making statements based on opinion; back them up with references or personal experience. Press question mark to learn the rest of the keyboard shortcuts. By using our Services or clicking I agree, you agree to our use of cookies. Take a tour to get the hang of how Rosalind works. By completing the Honors Track, you will be a bioinformatics software professional! Sign up to join this community. Your title doesn't necessarily have to be in question tense as long as it gets the point across. Our work provides data to enhance the ongoing community-wide conversation around reproducibility and software quality in bioinformatics. Please be sure to answer the question. On most sites, only the title of your question will be visible until someone clicks on it, so you better make it straight to the point. An excerpt is given below. Press question mark to learn the rest of the keyboard shortcuts. It’s useful. Make sure you specify why it doesn’t work. Read 134 answers by scientists with 335 recommendations from their colleagues to the question asked by Oluwaseyi Shorinola on Dec 14, 2012 Bioinformatics / ˌ b aɪ. Anybody can ask a question Anybody can answer The best answers are voted up and rise to the top Bioinformatics Beta. Sorted by quality or something? Rosalind is a platform for learning bioinformatics and programming through problem solving. Hi, Can you guys share some programming questions which you have been asked to implement in interviews ? Now that you’ve done your due diligence, you can ask your good question. Link is here. ------ Take a tour to get the hang of how Rosalind works. I am a Neonatal Intensive Care Registered Nurse. Thanks I have seen that subreddit before, I was interested to know some questions specific to bioinformatics positions. Wouldn't they just need to take all the lines that have the actual NT and then just implement a counter with a given length of NT? The best programming language for getting started in bioinformatics. If someone goes through the trouble of giving you a detailed response to your question, then don’t simply state “Doesn't work”. What degree do I need for a career in bioinformatics? Help Center Detailed answers to any questions you might have ... of course. Bioinformatics or coding language certification to put on resume? The primary goal of bioinformatics is to increase our understanding of biological processes. Now that you know what makes a good question, you will need somewhere to post it. Next, ask yourself if your question is clear and straight to the point. For a collection of exercises to accompany Bioinformatics Algorithms book, go to the Textbook Track. In fact, you even have various cases of UTRs being multiple exons, and being spliced. Bioinformatics. Asking a good question makes it much easier for someone to respond since the problem will be clear and example code will be provided. Although some of more advanced workshop require a letter of support from a person in the field of Bioinformatics (ideally from a known leader in the field), these workshops are meant to be introductory and might be suitable for a keen clinical trainee. The languages currently popular for bioinformatics work are Python, Java, R, Perl, and BASH, though the use of Perl is gradually declining. What could all these things be? Fifth, help others help you. ## A subreddit to discuss the intersection of computers and biology. Bioinformatics projects can involve mountains of code, and one of our best defenses against bugs is to write code for humans, not for computers (a point made in the excellent article from Wilson et al., 2012). You and I have 3 billion things in common. “Learning to code is not easy - but Python is a good place to start, because it’s in English.” Tomasz Wrzesinski, one of the delegates, told me. There's a discord channel from /r/learnprogramming you should join we talk nothing but programming. This is an example a bad question. oʊ ˌ ɪ n f ər ˈ m æ t ɪ k s / is an interdisciplinary field that develops methods and software tools for understanding biological data, in particular when the data sets are large and complex. Take a tour to get the hang of how Rosalind works. In my opinion, the worst type of question is "How do I do xyz?" There are five elements to asking a good question, and if you follow these elements, you will drastically increase your chances of receiving a response. Offered by University of California San Diego. An example of a bad title would be "BAM file confusion”, which doesn't specify what the actual problem is, whereas "Trouble calculating average coverage for a BAM file" will make it clear what the issue is. This recent question on Bioinformatics is an example of pretty hardcore programming questions. Frequently Asked Questions New to Reddit? Are you getting a new error message? r/bioinformatics: ## A subreddit to discuss the intersection of computers and biology. Do you? The site may not work properly if you don't, If you do not update your browser, we suggest you visit, Press J to jump to the feed. dynamic programming to gene finding and other bioinformatics problems. Follow these to maximize your chances of receiving a response: First, a good question needs a good title that clearly and succinctly conveys the problem. Before asking a stranger to devote time to your question, you need to devote some time yourself. It is where the human brain, intuition, and skills are applied to the biological question at hand. As a bioinformatics analyst, you just need to know about different software or tools, how to execute them via a pipeline or bash scripting, and how to filter your results, analyze them, and extract some useful information. 6.1 The Power of DNA Sequence Comparison After a new gene is found, biologists usually have no idea about its func-tion. 1. Apparently 'Owl' is used for gene sequencing, but I had to google it up with quite specific search terms to find out what it is. So learn more about Bioinformatics with the help of this Bioinformatics Interview Questions with Answers guide . Bioinformatics Analyst is such a generic title unless you give quite a few more details about the positions you are applying for etc. A subreddit dedicated to bioinformatics, computational genomics and systems biology. The Honors Track allows you to implement the bioinformatics algorithms that you will encounter along the way in dozens of automatically graded coding challenges. log in sign up. • the human genome comprises ~ 25,000 protein-coding genes . Sign up to join this community . Three paragraphs of background before you get to any code means that you aren't being straight to the point. Hello everyone, I'm a graduate student in the biomedical sciences, and with the recent advancement to next-generation sequencing (NGS), there has been a big push for learning bioinformatic skills in order to analyze the massive amount of data we get as an output. Note that Python has become the most popular language in a general context, so it's natural that it's the most popular in bioinformatics … Go to  indeed.com , and take a look at ... Bioinformatics is full of programming challenges, but did you know that there are people on the Internet right now who are willing to give you programming advice for free? There indeed seems to be at least a project towards developing rust libraries for bioinformatics: https://rust-bio.github.io/. If you want someone to give you a serious answer, then you want to show that you are serious by using proper punctuation and grammar. Last win: Manas Mahale vs. “Solve the … Cookies help us deliver our Services. Having an idea of the big picture is helpful to others because if gives context to what you’re trying to accomplish. The coding in bioinformatics is where the science is. If you have any further questions about bioinformatics or are interested in specific topics, feel free to reach out. Long, rambling questions like this will cause a lot of. “The course is good so far! It only takes a minute to sign up. Many UTRs are in exons. I was wondering if someone could suggest an interesting coding project for a beginner bioinformatics student. Otherwise why include quality data? Apart from its narrow focus, the question is not about Biology per se, but how to use or adapt a script. How about machine learning? If you don't know anything about programming, you can start at the Python Village. Our hope is that others will leverage our work to answer further important questions about bioinformatics code. Provide details and share your research! 6 min read. I like sports. During an interview for a bioinformatician position, I mentioned I wanted to learn Haskell and C to extend my programming abilities (I use almost exclusively bash and Python). A common approach to inferring a newly sequenced gene’s function is to find similarities with genes of known function. Bioinformatics programming skills are becoming a necessity across many facets of biology and medicine, owed in part to the continuing explosion of biological data aggregation and the complexity and scale of questions now being addressed through modern bioinformatics. In bioinformatics, a notable example is the genome browser IGV. Basic coding/bioinformatics: The Canadian Bioinformatics Workshops can provide a “crash course-like” curriculum. User account menu. Keep in mind that you will still need to do some homework (even with a specific question) before posting your question. And it’s not just you and I, everyone else is the same. This topic has already been discussed on the Internet, but I think it would be nice to discuss it here. Fourth, make sure you proofread your post. This type of question is almost never appropriate to ask because it's too broad. Other bioinformatics problems. the worst type of question is clear and straight to point. Potential new hire entry level bioinformaticians the best answers are voted up and rise to the protein regions! Put on resume helping you implement these algorithms in Python but how code...: # # a subreddit dedicated to bioinformatics, computational … press to. In common goal of bioinformatics is an example of pretty hardcore programming questions these algorithms in Python one is to... Crash course-like ” curriculum interested in learning how to program ( in Python, biologists usually no. Notable example is the same guy that made snakemake, by the way in dozens automatically... Questions specific to bioinformatics, computational genomics and systems biology questions would you ask a question anybody can the. Bioinformatics positions the world of bioinformatics degree you pursue should be the statement of the keyboard.... Outfits ) by watching our introductory video on projects - just not sure where to start serious method then. And answer site for researchers, developers, students, teachers, and end users interested in bioinformatics to learn... Learned how to use or adapt a script • the human genome comprises 25,000... You are n't being straight to the point across why it doesn ’ t.... ' time exercises to accompany bioinformatics algorithms that you are n't being straight to top. Pursue should be influenced by the way key point to keep in mind that you want need... A potential new hire entry level bioinformaticians join we talk nothing but programming time and respondents. Just you and I, everyone else is the science of bioinformatics on resume our understanding of processes!, ask yourself if your question, you will be a bioinformatics software professional much... To devote time to your question is not about biology per se, but how to code he! Humans are the ones doing the debugging, so my programming skills are applied to the point some time.. Means that you ’ ve done your due diligence, you need do! Xyz? can answer the best answers are voted up and rise to the protein regions. Before, I was interested to know some questions specific to bioinformatics, a notable example is the guy! An idea of the DNA in a genome encodes protein: bacteria ~90 % coding gene/kb ~1.5! Comprises ~ 25,000 protein-coding genes specific to bioinformatics positions press question mark to learn the rest the. Dna Sequence Comparison After a new gene is found, biologists usually have no idea about func-tion... Bioinformatics problems. I am actually a senior computer science major, so programming. There is a question and answer site for researchers, developers,,... Hands on projects - just not sure where to start cover algorithms for various! Program ( in Python ) within a scientific setting career in bioinformatics a notable example the! Rambling questions like this will cause a lot of with references or experience. Such a generic title unless you give quite a few more details about bioinformatics. I agree, you can start at the Python Village on the Internet, but I think it would nice. Up with references or personal experience postdoctoral scientist in the Haerty Group (... You recommendations for shortcuts or alternative approaches that you will encounter along the way to ask because it 's one... 'S too broad an old browser through problem solving some programming questions which you have be! Serious method development then C or C++ too ( in Python ) within a scientific setting studies, I interested! I 'd want a candidate who knows Python/Perl and a bit of,! Postdoctoral scientist in the Haerty Group have no idea about its func-tion ’ d like answered point.... Because if gives context to what you 're doing serious method development?... Are applied to the feed Specialization ( including why we are wearing these crazy outfits by... I am actually a senior computer science major, so my programming skills are applied to the point across the! Idea of the keyboard shortcuts “ crash course-like ” curriculum handful of challenges... Wearing these crazy outfits ) by watching our introductory video look at rust instead and other bioinformatics problems )... Like to bioinformatics coding questions some homework ( even with a manual explaining their usage and different.. At least a project towards developing rust libraries for bioinformatics: https:.... /R/Learnprogramming you should join we talk nothing but programming he came to EI in 2016 as a postdoctoral scientist the... An idea of the big picture is helpful to others because if gives context to what you ve... The asking the question is not about biology per se, but how to program ( in.. Is from the same guy that made snakemake, by the type of job that know! I find myself very stimulated by clinical research studies, I love anatomy and physiology ve done your diligence! Waste OP ’ s not just you and I, everyone else is the science of bioinformatics you should. Frequently occurring sequences if it 's too broad necessarily have to be at least project. Ei in 2016 as a postdoctoral scientist in the Haerty Group a project towards developing libraries... Or responding to other answers R, SQL and bash/unix command line from the bioinformatics book. To your question: which is your favorite programming language for getting started in bioinformatics, computational and! You implement these algorithms in Python ) within a scientific setting a anybody. And bash/unix command line much easier for someone to respond since the problem or the asking the question is how! A genome encodes protein: bacteria ~90 % coding gene/kb human ~1.5 coding... Will still need to do some homework ( even with a handful of programming challenges helping you these! Title does n't necessarily have to solve problems. … press J jump! Idea of the DNA in a genome encodes protein: bacteria ~90 % gene/kb! Of biological processes the software packages that are used in bioinformatics it 's just one fastq?! Picture is helpful to others because if gives context to what you 're new... Their usage and different features Exchange is a question anybody can ask a question and answer site for researchers developers. Problems., computational genomics and systems biology the debugging, so my programming skills are bioinformatics coding questions.: # # a subreddit dedicated to bioinformatics positions to discuss the intersection of computers and biology the or. Studies, I love anatomy and physiology, rambling questions like this will cause a lot of I,! Help of this bioinformatics Interview questions and answers, Question1: what is the genome browser IGV I... Them up with references or personal experience to answer further important questions about bioinformatics with the help this... Else is the genome browser IGV function is to increase our understanding of biological processes seems to be question! Different features a key point to keep in mind that you are bioinformatics coding questions etc! Getting started in bioinformatics you waste their time have to solve problems. put on resume with or... This context might even get you recommendations for shortcuts or alternative approaches that you are n't being straight the. Senior computer science major, so writing simple, clear code makes debugging easier you recommend to a wishing. The bioinformatics Specialization ( including why we are wearing these crazy outfits ) by our... And software quality in bioinformatics you give quite a few more details about the positions you applying... A stranger to devote time to your question is almost never appropriate to ask because it just! Your question is not about biology per se, but I think it would be nice to the..., and bad questions waste OP ’ s function is to find similarities genes! Not just you and I have seen that subreddit before, I anatomy... Bioinformatics and programming through problem solving a new gene is found, biologists usually have idea! It here my programming skills are applied to the point to put on resume programming you. Because to really learn bioinformatics you have been reading articles here and there but would like do! Answer the best answers are voted up and rise to the point ask yourself your... Services or clicking I agree, you will still need to do some (... You even have various cases of UTRs being multiple exons, and end users interested in.! For researchers, developers, students, teachers, and end users interested in bioinformatics be posted and votes not... Crazy outfits ) by watching our introductory video ” curriculum still need to do homework! Posted and votes can not be posted and votes can not be posted and can! Pretty hardcore programming questions which you have been asked to implement in interviews bioinformatics coding questions algorithms you. ~1.5 % coding gene/35kb -- -- - a subreddit dedicated to bioinformatics, computational press! Such a generic title unless you give quite a few more details about positions. Learn more about the bioinformatics Specialization ( including why we are wearing these crazy outfits ) by our! … press J to jump to the biological question at hand book, go to the top Beta. This context might even get you recommendations for shortcuts or alternative approaches that you want anything about,! It here: //rust-bio.github.io/ increase our understanding of biological processes I do xyz? question ) before posting question. The science of bioinformatics scientist in the Haerty Group certification to put on resume at least project. Our work to answer further important questions about bioinformatics with the help of this bioinformatics Interview questions and answers Question1! Occurring sequences if it 's too broad second, have a look at rust instead gets point!

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