Posted on Thursday, March 25, 2021 at 07:33PM by Barbara A Hill
Due to the end of support for the PathSeq pipeline and its modules by the authors, we have had to end support for the PathSeq pipeline in GenePattern. This means the PathSeq pipeline and its associated modules (see below) are no longer installed on any of our servers and are no longer available from any of our repositories. This includes the following:
- BlastNPipeline
- BlastParser
- BlastSubtraction
- BlastSubtractionLoop
- BlastXml
- BWA.Unmapped
- BWAPipeline
- BWASubtraction
- CatalogueReads
- ConcatenateFiles
- ExternalSort
- ExtractFullQuery
- ExtractPairsBam
- ExtractUnmapped
- ExtractUnmappedAdapterBlast
- Fasta2FQone
- Fastq2FQone
- FilterLength
- FQone2Fasta
- FQone2Fastq
- GetUnmappedReads
- MegaBlastPipeline
- ParsedBlastParser
- PathSeq.BlastN
- PathSeq.BlastX
- PathSeq.BWA.aln
- PathSeq.MegaBlast
- PathSeqPrototype
- PathseqReport
- PostBlastN.All
- PostBlastX.All
- PostMegaBlast.Bacterial
- PostMegaBlast.Ribosomal
- PostSubtraction
- PostSubtraction.Assembly
- PostSubtraction.Contigs
- PostSubtraction.Contigs.Scatter
- PostSubtraction.Contigs.Step
- PostSubtraction.Unmapped
- PostSubtraction.Unmapped.Scatter
- PostSubtraction.Unmapped.Step
- PreSubtraction
- QualFilter
- RemoveDuplicates
- RepeatMaskerFormatChange
- RepeatMaskerRead
- ScatterBlastSubtraction
- ScatterBWASubtraction
- Split2Pairs
- Subtraction
- Trinity_r2012.06.08
- UniqueIdentifier
Please contact us if you have any questions.
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