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Forum: Bioinformatics 06-10-2020, 10:15 PM
Replies: 0
Views: 528
Posted By bigblackbox
what to do about uneven reads between ATACseq samples?

I'm trying to look for differential open chromatin between 2 groups with two replicates each. After bowtie2 alignment, Group A has 70-76million paired reads while Group B had 80-95million paired...
Forum: Epigenetics 05-01-2020, 01:58 AM
Replies: 0
Views: 966
Posted By bigblackbox
What is the Bowtie2 default output file extension?

I'm processing samples for atac-seq using this galaxy tutorial (https://galaxyproject.github.io/training-material/topics/epigenetics/tutorials/atac-seq/tutorial.html#mapping) and I ran this command...
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