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bedtoolsis great for many things (sc)RNA-seq is none of it. What exactly do you want to do, I am sure there is tailored software for it.except cellranger,which software is the best to do gene count (include exon)for scRNA-seq example: type start end gene 1 10000 exon 10 100 exon 120 220
exactly i want to use 10X scRNA-seq data to analyse alternative last exon ,after mapping then i get .bam file ,which software is a good choice?
Hello fuhaolll2!
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