User: yiren

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yiren0
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Posts by yiren

<prev • 19 results • page 1 of 2 • next >
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Comment: C: how can chip seq macs2 call peaks filter Pvalue
... thank you ,I try it . ...
written 4 weeks ago by yiren0
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how can chip seq macs2 call peaks filter Pvalue
... hello everyone,I am using macs2 call my chip seq TF data.Now I have some confused about the peaks .I got the peaks bed file,I loaded the file and corresponding bw files(using deeptools produce the bw files from bam files ) in IGV,I found that some peaks that their Pvalues(-log10 Pvalue) were litt ...
chip-seq written 5 weeks ago by yiren0
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Comment: C: Deeptools for ChIP-Seq
... were you able to figure out what the Y-axis meant? ...
written 5 weeks ago by yiren0
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Comment: C: Average bigwig files (not sum)
... how did you merge your replicates bigwig format file? did you use bigWigMerge from UCSC tools? Now ,I also average my bigwig files.Thank you! ...
written 6 weeks ago by yiren0
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Comment: C: chip seq peaks are very long
... thank you for your reply. ...
written 6 months ago by yiren0
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Comment: C: chip seq peaks are very long
... It is Transcription factor. ...
written 6 months ago by yiren0
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Comment: C: chip seq peaks are very long
... thank you for your reply. ...
written 6 months ago by yiren0
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chip seq peaks are very long
... Hello ,every one, I have a question about peaks length.I get the peaks by macs2 for chipseq data(BAMPE file),but my peaks length is very long.they almost are bigger than 500 base. this is normal right?I will list some data from my peaks file below.Help me .Thank you very much!! chr | star | end ...
chip-seq written 7 months ago by yiren0
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Answer: A: Stringtie with Gencode gtf file doesn't give any gene_ids or transcript_ids?
... Hi,biologist did you solve this question? the question is in my pipeline for RNAseq,please what can I do next ? you can view my question from this link,[https://www.biostars.org/p/411989/#412009][1] [1]: https://www.biostars.org/p/411989/#412009 Thank you very much! ...
written 8 months ago by yiren0
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Comment: C: Stringtie output gtf file only contains STRG,no original annotations
... thank you for you reply.input gtf file is same as annotation file .Some genes geneid are ref_gene_id,but almost genes geneid are STRG flag. ...
written 8 months ago by yiren0

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