User: gnilihzeux

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gnilihzeux0
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Posts by gnilihzeux

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Comment: C: inconsistent results of rsem quantification
... Thanks for your reply. And sorry for my delay. After a long time, I've had a deeper understanding to the alignment parameters of bowtie2. ...
written 5 weeks ago by gnilihzeux0
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inconsistent results of rsem quantification
... I find `rsem-calculate-expression` put out two different results after my twice running with default parameters. I use the bowtie2 aligner and foud parameter `-k` will search for one or more alignments and RSEM has a default set `--bowtie2-k 200`. So, I guess that rsem will assign multiple ...
rsem isoform rna-seq written 19 months ago by gnilihzeux0 • updated 17 months ago by Biostar ♦♦ 20
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Comment: C: eclip-seq: Using edgeR/DESeq2 for normalizing peaks of IP/Input of transcript le
... It seems be okay to do so validated by viewing the peaks directly by IGV. Still there may some false positive result exsits, but I think it's okay. ...
written 22 months ago by gnilihzeux0
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Answer: A: eclip-seq: Using edgeR/DESeq2 for normalizing peaks of IP/Input of transcript le
... After a few days study theories of edgeR/DESeq2, I think it's okay to test the difference of IP/Input of genomic tags. However there is still a problem that the statistics power is uable to evaluate without replicates. So, it's hard for me now to determine real peaks. Still on the way... ...
written 22 months ago by gnilihzeux0
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eclip-seq: Using edgeR/DESeq2 for normalizing peaks of IP/Input of transcript level
... Hello everyone, I've been unprofessional with data for some time. There's a problem stopped me of how to normalized the peaks of IP/input in eclip-seq. I have a little experience in ChIP-seq, which normalized the peaks of IP/input using poisson's distribution on the level of genome region level, ...
clip-seq eclip-seq deseq2 edger written 23 months ago by gnilihzeux0

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