Junjie Chen

Miss some metrics in airr.tsv file.

11

Here is the command: perl trust-airr.pl test1_barcode_report.tsv test1_annotate.fa --format barcoderep > airr_rearrangement.tsv  As the figure shown, sequence_alignment, germline_alignment, cdr3nt, cdr3aa, and location of cdr1 cdr2 cdr3 are not in...

Does thread option affect running speed?

7

set thread as 12  set thread as 10  Why the speed is much slower when processing every 100k reads.

Filter cells from TRUST4 result

8

Hi, recently i analyze the same sample data by Cellranger and TRUST4. Although i have used barcoderep-filter script, the cell number of TRUST barcode report (6k Bcells) is still much...

Error - overlapping regions in bedGraph line 8812159 of Result/Analysis/A0920_3_ME_YSPB_WX_D_T7_EDTA5030/A0920_3_ME_YSPB_WX_D_T7_EDTA5030_sort .bdg [Tue Oct 31 20:18:50 2023] Error in rule scatac_bdg2bw: jobid: 1 output: Result/Analysis/A0920_3_ME_YSPB_WX_D_T7_EDTA5030/A0920_3_ME_YSPB_WX_D_T7_EDTA5030.bw shell: bedtools slop -i Result/Analysis/A0920_3_ME_YSPB_WX_D_T7_EDTA5030/A0920_3_ME_YSPB_WX_D_T7_EDTA5030_all_treat_pileup.bdg -g...