ERROR: unable to parse out UMI in--tried all suggestion mentioned previously
bony45 opened this issue · 0 comments
Hi ,
I am new to dropest pipeline.
i tried running my 10X output as
dropest -F -L eiEIBA -o conos_sample1 -g /lower_bay/home/bony.dekumar/refdata-cellranger-mm10-3.0.0/genes/genes.gtf -c /lower_bay/home/bony.dekumar/dropEst/configs/10x.xml ./outs/*.bam
as well as
dropest -F -L eiEIBA -o conos_sample1 -g /lower_bay/home/bony.dekumar/refdata-cellranger-mm10-3.0.0/genes/genes.gtf -c /lower_bay/home/bony.dekumar/dropEst/configs/10x.xml ./outs/*.bam
also tried
dropest -F -L eiEIBA -o conos_sample1 -g /lower_bay/home/bony.dekumar/refdata-cellranger-mm10-3.0.0/genes/genes.gtf -c /lower_bay/home/bony.dekumar/dropEst/configs/10x.xml ./outs/possorted_genome_bam
I am getting the following error
ERROR: unable to parse out UMI in
I changed 10x.xml file as follows
<umi_length>12</umi_length>
since this was a V3 chemistry..
If point me to a solution?
Thanks