How to create bam files.md

In ConesaLab/MirCure: A tool for quality control, filter, and curation of microRNAs of animals and plants

How to create a bam file:

bowtie2-build GENOME_FILE.fa GENOME

bowtie2 -L 18 -N 0 -x GENOME  -U $i  -S $i.sam

i=FASTQ_FILES.fastq

samtools view -S -b $i > $i.bam

samtools merge tissue.bam *.bam

• Adapters should be removed before these steps. You can use cutadapt to do that: https://github.com/jnktsj/DNApi

ConesaLab/MirCure documentation built on Jan. 6, 2021, 7:21 a.m.