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xie186 / ViewBS

ViewBS - a powerful toolkit for visualization of high-throughput bisulfite sequencing data
GNU General Public License v3.0
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Bug report: chromosome size beyond 2^29-1 (536870911) #38

Closed xie186 closed 5 years ago

xie186 commented 5 years ago

If there is a chromosome bigger than 2^29-1 (536870911), you need to add -C when generating the index file:

## A file with suffix of `csi` will be generated
tabix -C -p vcf test.tab.gz

Warning messages will be added when there is any genomic coordinate beyond 2^29-1 (536870911).

Brian1791 commented 5 years ago

Drs.Xie Thank you very much for your prompt answer. When I add the “-C” parameter, view-BS software work well. And I have another question was: which option can be used to set the statistical interval when i use the "MethGeno" model ? The default interval is 500kb.

Best regards. Jianxin Bian

xie186 commented 5 years ago

Please see the information below: 

    --win [optional]
             - Window size. Default: 500000
    --step [optional]
             - Step size. Default: 500000

I'll include the help message in the next release. Currently it will be only shown in that latest master branch: https://github.com/xie186/ViewBS

Brian1791 commented 5 years ago

Yes, thank you very much.