pckorhon

10x genomics SC5P-PE sequencing

1

Hi, For SC5P chemistry, I should be able to define 0,0,16:0,16,26:0,26,0 for the 1st read and 1,0,1:1,0,1:1,0,0 for the 2nd read in -x parameter. Can this be done? Best Pasi

CrossMap does not seem to transfer gene and mRNA from GFF file

3

Hi, in multiple occations, CrossMap does not seem to remap gene and mRNA lines from the input GFF file despite transferring exon and CDS lines for that particular gene. Does...

##gff-version 3 gene:Cs-k2.gene14802_1 index gene 1 15210 . - . ID=transcript:Cs-k2.gene14802.path1;Name=transcript:Cs-k2.gene14802 gene:Cs-k2.gene14802_1 index mRNA 1 15210 . - . ID=transcript:Cs-k2.gene14802.mrna1;Name=transcript:Cs-k2.gene14802;Parent=transcript:Cs-k2.gene14802.path1 gene:Cs-k2.gene14802_1 index exon 15108 15210 100 - . ID=transcript:Cs-k2.gene14802.mrna1.exon1;Name=transcript:Cs-k2.gene14802;Parent=transcript:Cs-k2.gene14802.mrna1 gene:Cs-k2.gene14802_1...