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my dear:
when I wos running ./build_and_test.sh,it print
`+ source settings.sh
++ export TF_CUDA_CLANG=0
++ TF_CUDA_CLANG=0
++ export TF_ENABLE_XLA=0
++ TF_ENABLE_XLA=0
++ export TF_NEED_C…
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I am trying to get to the bottom of why VarDict has some false negatives in my high-coverage amplicon samples. I noted that VarDict performs a number of filters which are documented in the VCF header:…
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I pull the latest version of deepvariant and failed to call make_examples as follows:
```
chungtsai_su@seqslab:~/src/deepvariant$ ./bazel-bin/deepvariant/make_examples \
> --mode calling \
…
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Hello, I see at least two people encountering the same issue , which seems to be a problem with the median function defined in the mtVariantCaller.py script. Can any one help? Thanks
##### ASSEMBLI…
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Hello!
There are certain issues with realignment that create false positives. I am unsure if they all originate from the same edge case, but sometimes realignment changes the local layout in what a…
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When invoking split lines / join lines dialog the error appears although the task is executed properly.
`
AWT events are not allowed inside write action: sun.awt.PeerEvent[INVOCATION_DEFAULT,runna…
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Hi,
public static final List BWA_COMMAND_LINE = ImmutableList.of("bwa", "mem", "-t", "%3$d", "%2$s", "%1$s");
realigner.createSupplementaryAlignments(aligner, INPUT, OUTPUT, MAX_RECORDS_…
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I was running the whole exome example from here:
https://cloud.google.com/genomics/docs/tutorials/deepvariant#calling_exome_regions_configuration
```#!/bin/bash
set -euo pipefail
# Set common se…
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Don't know if this a bug or installing error. Followed instructions to install for 1.13.1. Appears to have installed however, when I try and open a 1.13.1 server, it crashes.
Report
A detailed…
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In the rare disease pipeline the samples are processed per contig. In the RNA pipe we will process the whole bam file directly