Moderator: Dan D

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Dan D6.0k
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Tennessee
Website:
http://automationdan.com/
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Joined:
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Docendo discimus.

Posts by Dan D

<prev • 611 results • page 1 of 62 • next >
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Answer: A: Is there any software that can highlight or show the paired end reads within .sa
... If you're looking for an interactive visualization app, [Integrative Genomics Viewer][1] from the Broad can highlight many pairs at once. The same holds true for a similar program, [IGB][2]. [1]: http://software.broadinstitute.org/software/igv/ [2]: http://bioviz.org/igb/ ...
written 16 days ago by Dan D6.0k
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Comment: C: Book recommendation for the understanding of bioinformatic database
... This questions is highly general as it encompasses pretty much the entire field of database theory. Can you give some specific examples of model databases that you want to study? ...
written 4 weeks ago by Dan D6.0k
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Comment: C: Exponential growth of data in biomedicine needs a skilled and experienced workfo
... It is, based on the domain in the user's email address. ...
written 8 weeks ago by Dan D6.0k
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Answer: A: calling a function using glob.glob
... The error message you're seeing is unrelated to your use of the `glob` function. This line: cmd=['parsing_blast'] is equivalent to typing parsing_blast on the command line. There's apparently no executable by that name available. Are you trying to asynchronously call the `parsing_bla ...
written 8 weeks ago by Dan D6.0k
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Answer: A: How to extract whole gene sequence with 5' and 3' UTR from genome
... ##Step 1: Download and index the genome with samtools faidx: samtools faidx [radish.fa] ## Step 2: Extract the region of interest: samtools faidx [radish.fa] [contig_name:start_pos-end_pos] The result will be printed to STDOUT. ...
written 7 months ago by Dan D6.0k
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Comment: C: regular expression on Notepad+++
... I can't help it, I'm compelled to answer the question anyway. Find what: ^\s\d\s Replace with: To be clear: don't put anything in the "replace with" field. That should work if I'm understanding your query correctly. ...
written 7 months ago by Dan D6.0k
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Comment: C: regular expression on Notepad+++
... Hello chenmengutd! We believe that this post does not fit the main topic of this site. This is not related to bioinformatics For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with. If you disagree please tell us why ...
written 7 months ago by Dan D6.0k
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Answer: A: How can I retrieve the info to recreate this figure for my own data?
... Excel from the 2010 edition onward can accomplish something like your figure pretty easily. There's also [SigmaPlot][1], which is what I used before I became proficient with d3.js and matplotlib. This figure actually resembles a standard matplotlib product to me. [Tableau][2] is great too, but p ...
written 7 months ago by Dan D6.0k
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Comment: C: Demultiplex fastq files in which barcodes and primers are already removed
... Assuming this is the case (which hopefully it is), which tool will help him do what he needs? Fill in the blank: BB_________ ...
written 7 months ago by Dan D6.0k
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Tool: LabwareJS: Represent Microplates and Flowcells in SVG
... I know from previous questions that a lot of us get roped into doing LIMS work, which sometimes directly involves bioinformatics and other times is just tangential. There are also situations where we need to make interfaces to existing tools. Anyway, I don't see much out there for rendering labware ...
lims tool svg written 7 months ago by Dan D6.0k

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Appreciated 6 weeks ago, created a post with more than 5 votes. For A: what is in the fasta.fai
Good Answer 10 weeks ago, created an answer that was upvoted at least 5 times. For C: I want to re-open the old debate: python or perl ?
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: Bwa or bowtie for mapping mulitple genomes
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Popular Question 13 months ago, created a question with more than 1,000 views. For Unable To Replicate Splice Junction In Tophat
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Popular Question 17 months ago, created a question with more than 1,000 views. For Unable To Replicate Splice Junction In Tophat
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Getting Started With Ngs Analysis For Modeling Guy
Scholar 17 months ago, created an answer that has been accepted. For A: Bwa or bowtie for mapping mulitple genomes
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Getting Started With Ngs Analysis For Modeling Guy
Scholar 17 months ago, created an answer that has been accepted. For A: Bwa or bowtie for mapping mulitple genomes
Appreciated 18 months ago, created a post with more than 5 votes. For A: what is in the fasta.fai
Scholar 18 months ago, created an answer that has been accepted. For A: what is in the fasta.fai
Scholar 18 months ago, created an answer that has been accepted. For A: Bwa or bowtie for mapping mulitple genomes
Good Answer 18 months ago, created an answer that was upvoted at least 5 times. For A: Looking for opinions on PhD programs in Genetics and Genomics/Bioinformatics
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Teacher 18 months ago, created an answer with at least 3 up-votes. For A: Getting Started With Ngs Analysis For Modeling Guy

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