johnsonz

@zhuzhuyule same question, same info, and same log. More detial: I am using linuxdeploy(arm64, ubuntu18.04, android 6.0), but many xxx.so.x have been installed as long as it needs. It seems...

Thanks, it works. By the way. How I calculate the mutation effect from the output with `smoove annotate` ?

Is that mean LJA producing two haploid genomes with similar size ?

The extent of fragment in my assmbly is very high (contigs=8067), and I found the size is very huge ~ 1.7G (expected size ~ 1.1G). How could I tune the...

Thanks a lot. I try to assemble sex chromosome in chicken. It is single haplotype. But it turns out: ``` WARNING: no reads passed the length filter 2500 ``` There...

Found the problem: If there is a emplty reads in fasta file LJA will show the warning.

Same error. Hope it will be fixed.

Thank your for your quick reply! I am not sure about `Filtering SAM file` in https://github.com/tangerzhang/ALLHiC/wiki, which tell me `skip this step if you are using bwa mem for alignment`...

Thank you sincerely !

Sorry for reopening it. When I try to correct contigs, mapping HiC reads to draft assembly confused me, in which `bwa mem`: 1. I am not sure using bwa-mem with...