presto
stable
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Getting Started
Overview
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Installation
Release Notes
Usage Documentation
Commandline Usage
AlignSets.py
AssemblePairs.py
BuildConsensus.py
ClusterSets.py
CollapseSeq.py
ConvertHeaders.py
EstimateError.py
FilterSeq.py
MaskPrimers.py
PairSeq.py
ParseHeaders.py
ParseLog.py
SplitSeq.py
UnifyHeaders
API
Example Workflows
Roche 454 BCR mRNA with Multiplexed Samples
Illumina MiSeq 2x250 BCR mRNA
UMI Barcoded Illumina MiSeq 2x250 BCR mRNA
UMI Barcoded Illumina MiSeq 325+275 paired-end 5’RACE BCR mRNA
Example Tasks
Importing Data
Manipulating Annotations
Filtering, Subsetting and Converting
Isotype and Primer Annotations
Fixing Assembly Problems
Fixing UMI Problems
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presto
Commandline Usage
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Commandline Usage
AlignSets.py
AlignSets.py muscle
AlignSets.py offset
AlignSets.py table
AssemblePairs.py
AssemblePairs.py align
AssemblePairs.py join
AssemblePairs.py reference
AssemblePairs.py sequential
BuildConsensus.py
ClusterSets.py
ClusterSets.py all
ClusterSets.py barcode
ClusterSets.py set
CollapseSeq.py
ConvertHeaders.py
ConvertHeaders.py 454
ConvertHeaders.py genbank
ConvertHeaders.py generic
ConvertHeaders.py illumina
ConvertHeaders.py imgt
ConvertHeaders.py migec
ConvertHeaders.py sra
EstimateError.py
EstimateError.py barcode
EstimateError.py set
FilterSeq.py
FilterSeq.py length
FilterSeq.py maskqual
FilterSeq.py missing
FilterSeq.py quality
FilterSeq.py repeats
FilterSeq.py trimqual
MaskPrimers.py
MaskPrimers.py align
MaskPrimers.py extract
MaskPrimers.py score
PairSeq.py
ParseHeaders.py
ParseHeaders.py add
ParseHeaders.py collapse
ParseHeaders.py copy
ParseHeaders.py delete
ParseHeaders.py expand
ParseHeaders.py merge
ParseHeaders.py rename
ParseHeaders.py table
ParseLog.py
SplitSeq.py
SplitSeq.py count
SplitSeq.py group
SplitSeq.py sample
SplitSeq.py samplepair
SplitSeq.py select
SplitSeq.py sort
UnifyHeaders
UnifyHeaders consensus
UnifyHeaders delete
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v: stable
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