Justin Chu

@mpalmada including `labels = both` in the command should work. Choosing chromosomes might be a bit harder. They way I might do it remove the sequences from my set and...

I'm not entirely sure what kind of output you are expecting for the plot. Is it that you expected to see more connections? In this case, I would not increase...

Stale

Sorry for the late reply but the files are removed by make, if you want to retain them you can run the makefile and just specify the filenames to retain.

For example `jupiter name=test ref="dros.fa" fa="drosScaf.fa" test.rv.links.bundled test.fw.links.bundled test.conf test.fw.links.bundled.flipped` should retain the files.

Piping output to an external gzip output is much faster for some reason (same compression level).

The Bloom filter can technically be used by itself as BloomFilter.hpp doesn't actually include anything from ntHash. The only weird thing is that we store the k-mer size when the...

By default, each run of `biobloommaker` produces one filter (`.bf`) per command. That is using a single fasta file should collapse it into a single filter. For example: ``` biobloommaker...

`biobloomcategorizer` and `biobloommicategorizer` are different executables. For filters files created with `biobloommaker` only use `biobloomcategorizer` and for filters created with `biobloommimaker` use `biobloommicategorizer`.

Try something like ``` biobloommaker -p hb hb.kc.fa biobloommaker -p hbv hbv.kc.fa biobloommaker -t 10 -p human Homo_sapiens_assembly38.fasta biobloomcategorizer -t 40 --fa -e -p ccle -f "human.bf hb.bf hbv.bf" /NAS/lh/down/wgs/113368_1_1.wholegenome.fastq.gz...