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The PanGenie command line help indicates that a jellyfish database in jf format is an option for input.
-i VAL sequencing reads in FASTA/FASTQ format or Jellyfish database in jf format.
NOTE: I…
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When updating the wrapper for the bracken data manager on galaxy, we found that in the docs of https://benlangmead.github.io/aws-indexes/k2 the bracken DBs are referred to as `All packages contain a K…
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Hello,
I'm trying to think of a way that I can use this tool to detect variants that occur more frequently in one group than another. For example, suppose I have 50 samples sequenced to 20X coverag…
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Hi,
I have been unable to call the add operation more than once. The first time is successful, but then on the second call, it fails. E.g.
java -Xmx8g -jar /home/matt/pantools/dist/pantools.jar…
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**Packages that harmonize well:**
BBI (v0.2), BED (v0.3), BGZFStreams (v0.3), BigWig (v0.1), BioAlignments (v3), BioFetch (v0.2), BioGenerics (v0.1), BioSequences (v3), BioStructures (v2), Codecs (v…
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### Bug Report
When running the StructuralVariationDiscoveryPipelineSpark, I am getting the following error:
```
java.lang.UnsatisfiedLinkError:`/tmp/jp102/libfml.833188020007107749.jnilib: /lib6…
jprnz updated
6 years ago
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Hi,
I am interested in using GATB in long reads analysis as they seem more appealing with HiFi reads and ultra-long ONT reads. Is GATB specifically for NGS short reads? Will there be future support…
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Hello,
We are currently using kraken2+bracken but would definitely want to use the advantages of krakenuniq to identify unique kmers to reduce false classification.
I came across this [publication](…
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Hello, i just installed Wengan and im having this problem. Im running Wengan in a cluster in a single node!
Command:
perl /opt/BIO/wengan-0.2/wengan.pl -x ontraw -a A -s R-subs-0.1-1P.fastq.gz,R-…