Moderator: Ram

gravatar for Ram
Ram14k
Reputation:
14,270
Status:
Trusted
Location:
New York
Twitter:
@_RamRS
Scholar ID:
Google Scholar Page
Last seen:
4 hours ago
Joined:
4 years, 9 months ago
Email:
r****@nyu.edu

Bioinformatician turned Microsoft technologies developer turned bioinformatician. I love messing with text. UNIX>R>Python>Perl programmer, Excel pro, master Googler, database expert. 

I'm an amateur biologist interested in translational human genetics and healthcare.

Twitter: @_ramrs

Posts by Ram

<prev • 3,082 results • page 1 of 309 • next >
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Answer: A: Nomenclature in HGVS
... You have gotten it right. You could go all out and add the `NC_000009.12` identifier for the chromosome but that's not always required in most settings. ...
written 9 hours ago by Ram14k
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Comment: C: Finding pairwise alignment between two multifasta files for similarity search
... So it's the content that's the problem, not the query length :-) ...
written 13 hours ago by Ram14k
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Comment: C: Intron cordinates requires for known exons
... Just a pointer: biomaRt might be a good place to begin. You can set up an EnsEMBL mart and get exon coordinates for the gene of your query exon. Once you get that data, you can pick your exon of interest, its two surrounding exons and use their end points to get neighboring introns. If you wish to ...
written 14 hours ago by Ram14k
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Comment: C: Finding pairwise alignment between two multifasta files for similarity search
... Yes, it is. Why do you have that suspicion? ...
written 14 hours ago by Ram14k
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Comment: C: How to call all the allele in samples
... >gvcf joint calling DId you try googling that term? ...
written 15 hours ago by Ram14k
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Comment: C: Look for similar DNA sequences to a given sequence in the NCBI database
... REST API and C++ toolkit discovered after literally 5 minutes of Google: https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=DeveloperInfo ¯\\_(ツ)_/¯ ...
written 1 day ago by Ram14k
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Comment: C: Candida albicans gene counts
... I re-formatted it properly. ...
written 1 day ago by Ram14k
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Comment: C: Why only False Positives after VQSR ist step ?. Variant Annotation Software for
... Please use the formatting bar (especially the `code` option) to present your post better. I've done it for you this time. ![Formatting bar][1] [1]: http://i66.tinypic.com/33kdnjt.png ...
written 1 day ago by Ram14k
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Comment: C: retrieving long noncoding RNAs from PLANT RNA-seq
... Please read: http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002202 Your question is extremely vague and needs a lot more detail. ...
written 2 days ago by Ram14k
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Comment: C: Look for similar DNA sequences to a given sequence in the NCBI database
... You said CPP is OK too. Did you look for a way to run blast in CPP? It'd be a little difficult to believe that BLAST doesn't have APIs in *two* mainstream languages. ...
written 2 days ago by Ram14k

Latest awards to Ram

Commentator 2 days ago, created a comment with at least 3 up-votes. For C: calling the variants in a sample with respect to other sample
Teacher 7 days ago, created an answer with at least 3 up-votes. For A: How do I ask a question on Biostars?
Appreciated 8 days ago, created a post with more than 5 votes. For Meta: Markdown in Biostars (now enabled)
Scholar 15 days ago, created an answer that has been accepted. For A: How do I ask a question on Biostars?
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: New to bioinformatics.....
Commentator 5 weeks ago, created a comment with at least 3 up-votes. For C: R in bioinformatics
Scholar 6 weeks ago, created an answer that has been accepted. For A: BCFtools variant calling format
Popular Question 6 weeks ago, created a question with more than 1,000 views. For Benefit of platinum genomes in WGS experiment
Good Answer 8 weeks ago, created an answer that was upvoted at least 5 times. For A: Getting a bash pipeline to output non-zero exit code when a step fails
Scholar 8 weeks ago, created an answer that has been accepted. For A: BCFtools variant calling format
Appreciated 8 weeks ago, created a post with more than 5 votes. For Meta: Markdown in Biostars (now enabled)
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: why aren't relational DB's used more for genomic data?
Scholar 11 weeks ago, created an answer that has been accepted. For A: BCFtools variant calling format
Commentator 12 weeks ago, created a comment with at least 3 up-votes. For C: Cuffdiff input error
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: why aren't relational DB's used more for genomic data?
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: why aren't relational DB's used more for genomic data?
Scholar 4 months ago, created an answer that has been accepted. For A: BCFtools variant calling format
Appreciated 5 months ago, created a post with more than 5 votes. For Meta: Markdown in Biostars (now enabled)
Scholar 5 months ago, created an answer that has been accepted. For A: BCFtools variant calling format
Scholar 5 months ago, created an answer that has been accepted. For A: Recompile bedops with increased TOKENS_MAX_LENGTH

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