Simo Zhang

Continue the pipeline from BAM mapped by BWA

7

Hello @nservant, Thanks for HiC-Pro! I am new to HiC-Pro. My question is: if I have aligned my R1 and R2 reads using BWA, respectively, what should I do to...

This has been an issue for long enough: AGOUTI terminates because of zero joining-pairs extracted from coordinate-sorted BAM(s). I will work on this matter and keep my progress posted here......

segfault on certain combination of gapopen and gapextension penalties

2

Hello Hajime, First of all, thanks for developing minialign! I was trying to map some simulated pacbio reads (from Pbsim) against both GRCH38 and hg19 references. Besides the default setting...

Set up multiple invert-filter regex in config.toml

4

Hello, Thank you for the awesome tool. I have a question about setting up multiple invert filter REGEX in the config.toml file. I have checked the config example in the...