Question: vg gam file statistics: how many reads are mapped
0
gravatar for xwwang
4 months ago by
xwwang20
Gerogia , USA
xwwang20 wrote:

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 • 194 views
ADD COMMENTlink modified 3 months ago by Jouni Sirén130 • written 4 months ago by xwwang20
1
gravatar for Jouni Sirén
3 months ago by
Jouni Sirén130
UCSC Genomics Institute
Jouni Sirén130 wrote:

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.

ADD COMMENTlink written 3 months ago by Jouni Sirén130
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