User: niuyw

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niuyw0
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Beijing, China
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Posts by niuyw

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Comment: C: How to make a MotifDb object from pwm/pfm files?
... Sorry for the late reply. It's a good guide! Well, it's difficult for me to obtain all the metadata needed. I'm not familiar with TFs. Very looking forward to the new version of MotifDb. ...
written 3 months ago by niuyw0
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How to make a MotifDb object from pwm/pfm files?
... Hi, I'm using package MotifDb. It contains thousands motifs of transcription factors from various sources (e.g. JASPAR, CIS-BP etc.), and is very convenient. My question is: can I create a MotifDb object from pwm/pfm files? Sometimes using motifs not in the package is needed. Thanks! Yiwei Niu ...
motifdb written 5 months ago by niuyw0 • updated 5 months ago by Paul Shannon360
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Comment: C: How featureCounts define the gene length
... Thanks! According the doc of featureCounts, it's the total number of intersection of exons that belong to the gene, not the total number of DNA bases that belong to any exon for that gene. ...
written 16 months ago by niuyw0
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How featureCounts define the gene length
... Hi, I'm using featureCounts from the Rsubread package. But I have a question about the gene length returned by featrureCounts. I've read the case study here: http://bioinf.wehi.edu.au/RNAseqCaseStudy/, and the combination of featureCounts and edgeR is wonderful. We often need to get the R/FPKM value ...
rnaseq rsubread featurecounts written 16 months ago by niuyw0 • updated 16 months ago by Gordon Smyth32k

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