User: Santosh Anand

gravatar for Santosh Anand
Santosh Anand3.5k
Reputation:
3,480
Status:
Trusted
Location:
Last seen:
4 days, 22 hours ago
Joined:
2 years, 3 months ago
Email:
s************@gmail.com

Posts by Santosh Anand

<prev • 543 results • page 1 of 55 • next >
1
vote
3
answers
949
views
3
answers
Comment: C: get build 37 positions from dbSNP rsIDs
... Check it again, please. It does work for me. ...
written 6 weeks ago by Santosh Anand3.5k
1
vote
1
answer
180
views
1
answers
Answer: A: how to use GSEA analysis of RNA-seq expression profile data?
... It is fairly well described in the GSEA FAQ: **Can I use GSEA to analyze SNP, SAGE, ChIP-Seq or RNA-Seq data?** https://software.broadinstitute.org/cancer/software/gsea/wiki/index.php/FAQ ...
written 11 weeks ago by Santosh Anand3.5k
0
votes
2
answers
446
views
2
answers
Comment: C: How can I uninstall my packages in Rstudio
... you may like to move that to an answer ...
written 4 months ago by Santosh Anand3.5k
0
votes
2
answers
446
views
2
answers
Comment: C: How can I uninstall my packages in Rstudio
... Oh my bad! Thanks for the correction ...
written 4 months ago by Santosh Anand3.5k
0
votes
1
answer
556
views
1
answers
Comment: C: DESeq2- R commands for multiple groups
... DESEq2 does size-factor normalization automatically. So you don't have to calculate the size factors unless you need it for some specific reason. I would strongly suggest reading the DESeq2 pipeline, which will help to clarify many of your doubts https://bioconductor.org/packages/release/bioc/vigne ...
written 4 months ago by Santosh Anand3.5k
1
vote
0
answers
276
views
0
answers
Comment: C: How long does it take to map a data of 800 MB using STAR ?
... Can you do a quick check by mapping only around 300MB of current data and compare the time? BTW, also check that the command line that you used in last mapping is the same as this one (you can get the command line by STAR output files). If everything fails to give a reasonable answer, please post yo ...
written 4 months ago by Santosh Anand3.5k
0
votes
0
answers
227
views
0
answers
Comment: C: Differential expression using the whole dataset vs. using subset
... > Over and over, I've been asked to run differential expression analyses > on subsets of genes Without any strong reason to do that, this is plain wrong! You sometimes remove those genes which are very lowly expressed in samples. But that's not equivalent to running it on a subset. > I ju ...
written 4 months ago by Santosh Anand3.5k
1
vote
1
answer
525
views
1
answers
Answer: A: 2-pass mapping with STAR
... > SINCE MY ANNOTATIONS FILE IS .gff, SHOULD I BE USING > --sjdbGTFtagExonParentTranscript INSTEAD OF --sjdbGTFfile? Yes. But if it creates a problem, try converting gff to gtf. See https://groups.google.com/forum/#!searchin/rna-star/grant%7Csort:date/rna-star/yl6JRltAuG4/bbuKHQM4AgAJ > HO ...
written 4 months ago by Santosh Anand3.5k
1
vote
0
answers
288
views
0
answers
Comment: C: Encrypting BAM files
... https://crypto.stackexchange.com/questions/44927/how-long-does-a-good-aes-encryption-take/44934 ...
written 4 months ago by Santosh Anand3.5k
0
votes
2
answers
141
views
2
answers
Comment: C: I am asked to run MutSigCV on sample size 2!!!!!!
... Fairly true. Just wanted to motivate the OP :) ...
written 4 months ago by Santosh Anand3.5k

Latest awards to Santosh Anand

Teacher 29 days ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 10 weeks ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 3 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Appreciated 3 months ago, created a post with more than 5 votes. For A: How to recover treated/control count from DESeq2 output
Teacher 4 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 5 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 5 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 5 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 5 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 5 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: Merge two BAM files with different but overlapping reference sequences?
Teacher 8 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 8 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 9 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 9 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Good Answer 9 months ago, created an answer that was upvoted at least 5 times. For A: read.table does not read in all rows!
Scholar 10 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 10 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 10 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 10 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 10 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 11 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 11 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Commentator 11 months ago, created a comment with at least 3 up-votes. For C: Merge two BAM files with different but overlapping reference sequences?
Scholar 11 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 773 users visited in the last hour