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vg gam file statistics: how many reads are mapped
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9 months ago
xwwang ▴ 20

Is there any existing tool which can calculate how many reads are mapped in .gam file which is generated by command: vg map

for example the .gam file is "graph.read.gam"

vg • 264 views
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Entering edit mode
8 months ago
Jouni Sirén ▴ 130

You can get some basic statistics about the GAM file with vg stats -a alignments.gam [graph-name]. The graph file is optional, but if you include it, vg stats will compute some extra statistics.

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