Moderator: Ram

gravatar for Ram
Ram11k
Reputation:
11,460
Status:
Trusted
Location:
New York
Twitter:
@_RamRS
Scholar ID:
Google Scholar Page
Last seen:
4 hours ago
Joined:
3 years, 11 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 • 2,409 results • page 1 of 241 • next >
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Comment: C: Install and Run R on Linux
... Hello Rafay Khan! We believe that this post does not fit the main topic of this site. This post is not accurate, and does not show any signs of effort. Please improve on the points others have mentioned here. For this reason we have closed your question. This allows us to keep the site focused o ...
written 5 days ago by Ram11k
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Comment: C: BAM compression: .tar.gz = same size as before?
... Not really - I was running trials and I tried converting a really small BAM file and a large BAM file to check compression ratios. ...
written 6 days ago by Ram11k
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Comment: C: BAM compression: .tar.gz = same size as before?
... CRAM is good for archive purposes - it can take ~24 hours for a CRAM file to be created out of a ~30GB BAM file, and the size will be probably ~60% of the BAM. Check out if your BAM files have qual scores binned, and try to bin them while creating the CRAM - that will have a nontrivial impact on the ...
written 6 days ago by Ram11k
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Answer: A: Merging 2 files based on the 3rd mapping file
... Why SQL? I'd go with awk for this, but the logic is to pull the coordinate, add 100 to it and match it to the other file - you can implement that using any language that can process tab separated files. ...
written 7 days ago by Ram11k
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Answer: A: Differential gene expression using R studio
... RStudio is an interface. You're looking for software written in R (called `package`s) that help you with DE analysis. Packages such as [DESeq2][1] and [edgeR][2] might be a good place to start. [1]: https://bioconductor.org/packages/release/bioc/html/DESeq2.html [2]: https://bioconductor.org/p ...
written 12 days ago by Ram11k
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Comment: C: How to deal with the Ns in gene sequences?
... Why use a Python program? Is this an assignment question? ...
written 17 days ago by Ram11k
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Comment: C: How to deal with the Ns in gene sequences?
... I'd recommend masking these regions. ...
written 18 days ago by Ram11k
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Comment: C: what is the difference between bioinformatician and Postdoc in Bioinformatics
... Glad to be of help :) ...
written 5 weeks ago by Ram11k
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Answer: A: what is the difference between bioinformatician and Postdoc in Bioinformatics
... Personal experience: I'm a bioinformatician. I have a Masters in Bioinformatics and no PhD. I have worked as the sole bioinformatician in a lab, as well as part of a team of bioinformaticians. I can confirm that we largely work with post docs and instructors/professors on their research. We can ha ...
written 5 weeks ago by Ram11k
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Comment: C: why does this pipe work
... The command being executed is equivalent to `:`, as I understand. Bash continues to amaze me. ...
written 5 weeks ago by Ram11k

Latest awards to Ram

Good Answer 7 days ago, created an answer that was upvoted at least 5 times. For A: bash loop for alignment RNA-seq data
Scholar 15 days ago, created an answer that has been accepted. For A: Problem using a custom blast database in tblastx
Appreciated 18 days ago, created a post with more than 5 votes. For Meta: Markdown in Biostars (now enabled)
Appreciated 20 days ago, created a post with more than 5 votes. For Meta: Markdown in Biostars (now enabled)
Teacher 25 days ago, created an answer with at least 3 up-votes. For A: Problem using a custom blast database in tblastx
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: Problem using a custom blast database in tblastx
Scholar 5 weeks ago, created an answer that has been accepted. For A: Problem using a custom blast database in tblastx
Scholar 7 weeks ago, created an answer that has been accepted. For A: Problem using a custom blast database in tblastx
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: Problem using a custom blast database in tblastx
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Problem using a custom blast database in tblastx
Appreciated 3 months ago, created a post with more than 5 votes. For Meta: Markdown in Biostars (now enabled)
Good Answer 3 months ago, created an answer that was upvoted at least 5 times. For A: bash loop for alignment RNA-seq data
Commentator 4 months ago, created a comment with at least 3 up-votes. For C: Cuffdiff input error
Scholar 4 months ago, created an answer that has been accepted. For A: Problem using a custom blast database in tblastx
Appreciated 5 months ago, created a post with more than 5 votes. For Meta: Markdown in Biostars (now enabled)
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Problem using a custom blast database in tblastx
Popular Question 5 months ago, created a question with more than 1,000 views. For Duplicate @Sq Lines In Sam File Header
Scholar 5 months ago, created an answer that has been accepted. For A: Problem using a custom blast database in tblastx
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Problem using a custom blast database in tblastx
Popular Question 5 months ago, created a question with more than 1,000 views. For Duplicate @Sq Lines In Sam File Header
Popular Question 5 months ago, created a question with more than 1,000 views. For Duplicate @Sq Lines In Sam File Header
Commentator 6 months ago, created a comment with at least 3 up-votes. For C: Cuffdiff input error
Commentator 6 months ago, created a comment with at least 3 up-votes. For C: Cuffdiff input error

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