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GenomicsAotearoa / long-read-assembly

Long-read assembly workshop
https://genomicsaotearoa.github.io/long-read-assembly/
GNU General Public License v3.0
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Merqury and meryl install #6

Closed DininduSenanayake closed 1 year ago

DininduSenanayake commented 1 year ago

Merqury and meryl install - Might be easier to be included in the same module

DininduSenanayake commented 1 year ago 
$ module load Merqury/1.3-Miniconda3

$ merqury.sh 
Usage: merqury.sh [-c] <read-db.meryl> [<mat.meryl> <pat.meryl>] <asm1.fasta> [asm2.fasta] <out>
    -c      : [OPTIONAL] input meryl databases are homopolymer compressed, while asm.fasta isn't
              This option is not supported for trio-based analysis. Use pre-compressed assemblies with no -c option.
    <read-db.meryl> : k-mer counts of the read set
    <mat.meryl> : k-mer counts of the maternal haplotype (ex. mat.hapmer.meryl)
    <pat.meryl> : k-mer co....
$ module load Merqury/1.3-Miniconda3

$ meryl --help
usage: meryl ...

  A meryl command line is formed as a series of commands and files, possibly
  grouped using square brackets.  Each command operates on the file(s) that
  are listed after it.

  COMMANDS:

    statistics           di..