worker000000

thanks a lot, do you mean do as following? # umi_tools extract --bc-pattern=CNNNC --bc-pattern2=CNNNC --log=processed.log -I 28_1.fq.gz -S R1_TMP_umitools.fq.gz --read2-in=28_2.fq.gz --read2-out=R2_TMP_umitools.fq.gz # # delete cell_code and umi from fq2 zless...

can you have a look of my issuses in this https://github.com/CGATOxford/UMI-tools/issues/477 , thanks a lot

> Are you removing the UMIs in the FASTQ headers for read2? You do not need to do that. You only need to extract the UMI from the read sequences...

> When you pass in the `--paired` flag, any read1 that is removed will cause its corresponding read2 to be removed too. (Same behavior as UMI-tools) Thanks a lot fot...

abother question is we know wgs always give big fragments of cnv. so why here the configure file, the window size is 500, people seems to use 1M instead of...

> We recommend remap your samples to the ref genome provided by us to avoid some unexpected behaviour. Or, you can generate your own ref data according to https://www.yfish.org/display/PUB/Accucopy#Accucopy-3.7Makeyourownreferencegenomepackage thanks...

> You probably need to watch some videos or read some reviews/tutorials to understand how DNA is extracted from a cell, fragmented, and PCRed before it is put on a...