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First of all...thank you very much for this software.
I have a problem running parsnp on Linux (I am using the precompiled package). I cannot get rid of this error:
lfreschi@katak:~/sw/harvest/all/h…
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Hi there,
I've seen this cross posted a few places without response and have also put it on the google group.
Haven't been able to get gemini to work yet at all.
Ran gemini update, works fine.
Ran…
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it should differentiate between the two.
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Hi Brad,
Thanks for your help. I want to call structural variants, but get an error: the parallel, svtyper, cnvnator_wrapper.py, cnvnator-multi, annotate_rd.py are not found in PATH, like this:
[2…
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**Proposed topic for ASHG**
How to support Variant calling with the API?
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discussion continued from pull request #167 with @droazen and @haasb
The real difference here is that the values for one field (for all samples) are contiguous in memory. And given a big enough VCF…
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Consider a researcher who writes a script against the GA4GH APIs, accesses data and publishes the results. The current APIs do not guarantee that subsequent researchers will get the same result when r…
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I cannot install the whole bcbio-nextgen package on our linux cluster. I would like to compare our own called VCF files to NIST HC variants and get concordance, FPs, FNs and etc ( just as you did in h…
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Right now, we can use Spark's RDD 'join' method to perform equi-joins on ADAMRecords or other types -- joining records based on the equality of one or more fields.
However, for several different gen…
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