remove from mummerplot some contigs
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Entering edit mode
15 months ago
shinken123 ▴ 110

Hi,

I am running mummerplot using the alignments of contigs against a reference genome.

My command to run mummerplot is this one:

mummerplot -p contigsvsreferencegenome  -r Chr1 -t png --filter --layout Nucmer_c156_g1000_l1000_i90.mdelta


I would like to include in the plot only the contigs that align against chr1, so I tried the option -Q with a file with the names of the contigs, however, it is not working.

my file is something like

contig1
contig2
contig3


Do you know how I could remove the contigs without alignments from the plot?

mummerplot mummer • 312 views