User: Santosh Anand

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Santosh Anand3.0k
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1 year, 7 months ago
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Posts by Santosh Anand

<prev • 482 results • page 1 of 49 • next >
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Comment: C: Enrichr analysis using ranked gene list
... I think they changed the P-value calculation in the algorithm and to be compatible with old results, they still provide those values. IMO, you can safely ignore that. ...
written 18 days ago by Santosh Anand3.0k
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Comment: C: FDR and Pvalue in EdgeR
... you can easily correct Pval according to your favorite method. See `?p.adjust` ...
written 26 days ago by Santosh Anand3.0k
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Answer: A: Databases with promoter sequence details
... http://epd.vital-it.ch/ ...
written 5 weeks ago by Santosh Anand3.0k
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Comment: C: Problem with LARGE MATRIX
... what is your exact problem. 20530* 373 matrix is a normal sized matrix in R. Your bottleneck lies somewhere else. ...
written 8 weeks ago by Santosh Anand3.0k
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Comment: C: Presenting differential expression data containing infinite log2(Fold Change)s
... Which tool did you use for differential analysis? The chances are very high that the final output is already log2(FC). On the other hand, adding a tiny number to avoid taking log of zero is quite accepted. ...
written 9 weeks ago by Santosh Anand3.0k
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Comment: C: How to do GSEA from gene profiles obtained from GEO
... You must need one metric to rank the data. Because, the algorithm looks if there are enriched set at the top or bottom of a ranked list. Then you can run gseapreranked. How are your profiles created? Isn't there any metric which can rank the genes in the profile? ...
written 10 weeks ago by Santosh Anand3.0k
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Comment: C: How to do GSEA from gene profiles obtained from GEO
... Read the FAQ: http://software.broadinstitute.org/cancer/software/gsea/wiki/index.php/FAQ The various scenario of running GSEA are clearly explained there. ...
written 10 weeks ago by Santosh Anand3.0k
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Answer: A: randfold - problem with installation
... The error says that LD-linker is not able to find the respective librarary. What was your commandline for installing the program? Did you check that all the dependencies are installed? ...
written 10 weeks ago by Santosh Anand3.0k
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Answer: A: How to identify your analytic data is true?
... What is your definition of **truth**? If you are just worried about the samples being mislabeled/exchanged, then there are various means to diagnose it. Also given the fact that samples are run in replicates, if something odd happens to one or some of them, you might see it from various computationa ...
written 10 weeks ago by Santosh Anand3.0k
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Comment: C: How to identify your analytic data is true?
... Exchange of sample labeling has happened to me, not once, not twice but thrice, both with sequencing and microarray! It is easy to detect it through clustering and correlations, however, if the mixed-up sample is completely unrelated, that might be a problem, depending upon how much close it is to t ...
written 10 weeks ago by Santosh Anand3.0k

Latest awards to Santosh Anand

Scholar 19 days ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 27 days ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 5 weeks ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Good Answer 5 weeks ago, created an answer that was upvoted at least 5 times. For A: read.table does not read in all rows!
Scholar 9 weeks ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 11 weeks ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 11 weeks ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 12 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
Scholar 3 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: Merge two BAM files with different but overlapping reference sequences?
Scholar 3 months 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
Scholar 3 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 3 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Scholar 4 months ago, created an answer that has been accepted. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Teacher 4 months ago, created an answer with at least 3 up-votes. For C: Visualizing hg19 and hg38 FPKMs in a single plot
Voter 4 months ago, voted more than 100 times.
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
Scholar 5 months ago, created an answer that has been accepted. 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?
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?

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