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Árbore: 05b2977565
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RunFeatureCo...
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zhangxudong 05b2977565 suppor SAF format hai 1 ano
support_scripts f138256959 first commit %!s(int64=3) %!d(string=hai) anos
README.md 05b2977565 suppor SAF format hai 1 ano
abundance_estimates_to_matrix.pl 71cd505a04 add cpm %!s(int64=2) %!d(string=hai) anos
run-featurecounts.R 05b2977565 suppor SAF format hai 1 ano

README.md

一.安装

  1. 安装依赖R包 argparser, Rsubread, limma, edgeR
  2. 安装本软件
git clone http://git.genek.cn:3333/zhxd2/RunFeatureCounts.git

二.使用

对 GTF 定量

Rscript RunFeatureCounts/run-featurecounts.R -b ../21.Mapping/BLO_S1_LD1.bam -g ../12.ref/genes.gtf -f exon -a gene_id -i FALSE -s 2 -o BLO_S1_LD1

对 SAF 定量

Rscript RunFeatureCounts/run-featurecounts.R -b aligned/FoxA1_E2_rep1_sorted_filtered.bam --saf merged_peaks.saf --isPairedEnd FALSE -o FoxA1_E2_rep1