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corticall's Issues

ctx spec

I think "The first uint64_t of a kmer_container is always partially empty unless the stored kmer fits exactly into the kmer_container." may be incorrect.

I think to be correct, the second word needs to be changed from first to last.

ctxgraph usage: short arguments should be short

Please rename -ieg command line argument to -g. Also update usage from

Graph with inferred edges

to

Sorted cortex graph with inferred edges

and

Contigs (in FASTA format)

to

Contigs (in FASTA format - must be indexed with samtools)

where can I find cortexjdk

Hi,
I am searching for cortexjdk to find. I tried to compile the master branch with ant. it produces corticall.jar. I cant find tools like RecoverExludedKmers or Join.

Thanks,
Moustafa

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