Public Repository

Last pushed: 2 years ago
Short Description
The Docker Container sorts, indexes and creates bigwig files from bam or pbam directories
Full Description

This repo converts psuedo bams and bams into bigwigs. Bigwigs are used for IGV plotting. this handles the recursive directory conversion of bam and / or .pbams into bigwigs.

to run this enter

sudo docker run -v /home/quigonjinn/Documents/BedGraph/bedtools_bam2bw/bedtools_bam_samples:/bedtools_bam_samples -i -t arcolombo/bgandbdtools:v7 ConvertDirectory.sh /bedtools_bam_samples

The ConvertDirectory.sh converts any bam or pbam into bigwig file, sorting it, and creating an index. It also calculates the chromosome bin size.

Docker Pull Command
Owner
arcolombo

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