macs3 callpeak-t ChIP.bam-c Control.bam--broad-g hs--broad-cutoff0.1###ATAC-seq 的峰值识别(成对末端模式) macs3 callpeak-fBAMPE-tATAC.bam-g hs-n test-B-q0.01###ATAC-seq 的峰值识别(关注插入位点,使用单端模式) macs3 callpeak-fBAM-tATAC.bam-g hs-n test-B-q0.01--shift-50--ex...
Hello, I would like to use the MACS3 hmmratac tool to peak call my 10x multiome (single-cell ATAC-seq) dataset. I firstly ran the cutoff analysis as follows: macs3 hmmratac -i file.bam -n file -f BAMPE --outdir ./dir --cutoff-analysis-on...
Discussed in #675 Originally posted by DayTimeMouse November 19, 2024 Hi, Thanks for developing this function to call peaks for ATAC-Seq. I ran macs3 hmmratac -i final.bam -n treat --cutoff-analysis-only. Then, I got the report(see the a...
寻找ChIP-seq的组蛋白(Histone )Mark的命令: ### 生成的文件是broadPeak macs3 callpeak -t ChIP.bam -c Control.bam --broad -g hs --broad-cutoff 0.1 对于ATAC-seq双端数据的操作: macs3 callpeak -f BAMPE -t ATAC.bam -g hs -n test -B -q 0.01 -f是输入文件的格式,可以是BAM、BED,软...
MACS3 github专门开放了一个征对 ATAC-seq call peak 的讨论模块:https://github.com/macs3-project/MACS/discussions/435 image.png liu tao学生HMMRATAC开发者不同意xi chen说法:https://twitter.com/epigeneticsnerd/status/1337081681141002240 So if you are going to useMACS1/2forATAC-seq, andI will inste...
macs3 callpeak-t ChIP.bam-c Control.bam--broad-g hs--broad-cutoff0.1###ATAC-seq 的峰值识别(成对末端模式) macs3 callpeak-fBAMPE-tATAC.bam-g hs-n test-B-q0.01###ATAC-seq 的峰值识别(关注插入位点,使用单端模式) macs3 callpeak-fBAM-tATAC.bam-g hs-n test-B-q0.01--shift-50--ex...
used for ChIP-Seq data alone, or with a control sample with the increase of specificity. Moreover, as a general peak-caller, MACS can also be applied to any "DNA enrichment assays" if the question to be asked is simply:where we can find significant reads coverage than the random back...
used for ChIP-Seq data alone, or with a control sample with the increase of specificity. Moreover, as a general peak-caller, MACS can also be applied to any "DNA enrichment assays" if the question to be asked is simply:where we can find significant reads coverage than the random back...
MACS -- Model-based Analysis of ChIP-Seq macs3-project.github.io/MACS/ Topics pythondnase-seqchip-seqpeak-calleratac-seqpoisson-equationmacs Resources Readme License BSD-3-Clause license Code of conduct Code of conduct Activity Custom properties ...
ATAC-seq settings#145 Open igordotopened this issueAug 31, 2016· 29 comments crazyhottommymentioned this issueMay 15, 2017 shifting reads bam for NucleoATAC?GreenleafLab/NucleoATAC#58 Closed xuzhougengmentioned this issueJun 19, 2018 For recent alternatives have a look athttps://github.com/Liu...