User: lida

gravatar for lida
lida10
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8 months ago
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l***@sioc.ac.cn

Posts by lida

<prev • 6 results • page 1 of 1 • next >
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Comment: C: bigWig tracks inconsistent with MACS2 callpeak
... Sure, my MACS2 command is `macs2 callpeak -t -c -f BAM -g dm -p 0.01 -B --outdir macs_res --min-length 3000 --nomodel --extsize 300 --broad` This is input (1-5.scale.bw) and IP (11-15.scale.bw) samples ![](https://mdgraphs-1304942877.cos.ap-shanghai.myqcloud.com/20210224093813.png) ...
written 6 days ago by lida10
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bigWig tracks inconsistent with MACS2 callpeak
... Hi, all Recently, I have been dealing with some H3K27me3 ChIP-seq data. I used MACS2 to callpeak (with `--broad` ) and visualized the bw files (converted from bam) in IGV. ![](https://mdgraphs-1304942877.cos.ap-shanghai.myqcloud.com/20210223095154.png) For me, this entire window seems possessed ...
macs2 chip-seq written 7 days ago by lida10
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Comment: C: Question of heatmap of ChIP-seq
... Again, Thanks for your help, I will try your suggestion :) ...
written 4 months ago by lida10
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Comment: C: Question of heatmap of ChIP-seq
... Thanks for your reply. But the situation you mentioned above is describing a majority of genes or just the active genes? As your figure demonstrated, there is some histone modifications which cover the TSS for inactive gene. By the way, is it common for using the chromosome Start coordinate of an ...
written 4 months ago by lida10
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Question of heatmap of ChIP-seq
... Hello , I'm dealing with a ChIP-seq data of H3K4me3 modification from drosophila and make a heatmap by deeptools-3.3.0 with following commonds First, I extract the **chromosome number**, **chrStart, chrEnd, 6, strand and 8** columns from annotated information to make a BED file for `computeMatrix ...
chip-seq written 4 months ago by lida10 • updated 4 months ago by ATpoint46k
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Comment: C: Welcome to join our Wechat group for Bioinformatics!
... Hi, I am interested in your group, but the QR-code isn't working. If you mind to post it again? ...
written 5 months ago by lida10

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