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trichelab / spiky

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Spike in control contigs are in separate bam from genomic contigs #36

Open swils6 opened 3 years ago

swils6 commented 3 years ago

Currently, the way my pipeline works is that it outputs a bam for the spike-in controls, and another for the genomic contigs. Due to this, I cannot run scan_genomic_contigs() because if I run on only the spike-in bam, there are no genomic contigs present.

Can we have a function to load in spike in data and make GLM and another function to load in genomic contigs to use GLM on?

swils6 commented 3 years ago

disregard - I have the spikes loaded in separately now.