-b, --bam : 输入的bam文件 -o :输出的bw文件 -bs, --binSize :分割的bin size --normalizeUsing :每个bins中read counts的校正单位,可以从 RPKM , CPM , BPM , RPM , RPGC 中选择 --effectiveGenomeSize :可比对基因组区域的大小(bp),可以从这里查 http://deeptools.readt...
mkdir -p {params} echo "sample name:{wildcards.sample}" > {output} infer_experiment.py -r {input.bed} -i {input.bam} >> {output} 2>&1 """rule bam2bw:input:bam=op.join(base,gse,"results/mapping","{sample}","{sample}.rmdup.bam"),strand=op.join(base,gse,"results/strand_spe...
bamCompare bamCompare的基本用法如下 bamCompare -b1 treatment.bam -b2 control.bam -o log2ratio.bw \ --scaleFactorsMethod readCount \ --binSize 10 \ --operation log2 \ --pseudocount 1 其中, -b1:处理组的bam文件 -b2:控制组的bam文件 -o:输出的bw文件 --scaleFactorsMethod: Possible choices...