johnsonz

Thank you for your help ! And I have used HiC-Pro, which use `bowtie2` with single-end mode to map HiC-reads, perhaps it will generate more valid reads by cutting reads....

Ok, I will try. I rerun bwa-mem to get `bam` file as your suggestion, after correcting my draft, `ALLHiC_partition` step shows log like [log.txt](https://github.com/tangerzhang/ALLHiC/files/6010243/log.txt), and still only got 1 group.

@wyim-pgl Thank you, I guess you mean `samtools faidx ` and `bwa index` my correction assembly ? Indeed, I forgot to index last time. But still got 1 group after...

Hi Ahahaha3, my genome is about 1.2Gb, and it is time-consuming, I don't remember exactly.

@wyim-pgl Do you mean remap the HiC reads to `hybrid_m_all_cor.fasta` ?

@wyim-pgl Thank you so much! I got HiC heatmap of my assembly. But I don't know how to interpret it. Is there some wiki to learn about HiC heatmap and...

> That looks like an 'out of memory' error. Note that the '-memory' option is in gigabytes, so you're telling it there is 1 TB of memory available for use....

> We've occasionally seen corrupt meryl databases do this. If `meryl greater-than 1000 database.meryl` suffers the same fate, that's likely the problem. Test both the `-readmers` and `-seqmers` databases. Thank...

> > We've occasionally seen corrupt meryl databases do this. If `meryl greater-than 1000 database.meryl` suffers the same fate, that's likely the problem. Test both the `-readmers` and `-seqmers` databases....

The information generated by `gdb merfin core.429801` ``` Dwarf Error: wrong version in compilation unit header (is 5, should be 2, 3, or 4) [in module /storage-01/poultrylab1/mambaforge/lib/libstdc++.so.6] Dwarf Error: wrong...