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Can I run velocyto with RNAseq done with Illumina Hiseq
Dear all,
I'm studying the germline cells and I isolated single nuclei from single germ cells and sequenced the content with Illumina Hiseq paired-end platform. The Nuclei are huge and gave me enough RNA content to make the libraries. I have 16 such samples/datasets with ~8Gbs of reads for each sample. Can I run velocyto with my data (maybe with run- Run on any technique)? I can use aligned and sorted bam files as input. Any suggestions in general? Any suggestions on reads alignment tool? Exon junction aware tools preferred?
Thanks!
Wanpeng
Hey Wanpeng,
I am facing a similar situation. Did you have any progress with this?
Thanks, Nithish