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Commits on May 13, 2021

• Replace ShortRead::nFilter calls

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Commits on May 18, 2020

• removePrimers messaging improvements

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Commits on Mar 7, 2020

• Fixing NOTEs

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Commits on Oct 23, 2019

• Directories can now be provided in place of lists of fastq file paths to core dada2 functions

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Commits on Oct 21, 2019

• Indels can now be allowed when using removePrimers

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Commits on May 7, 2019

• Bug fixes for removePrimers

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Commits on Apr 22, 2019

• Export removePrimers and update its documentation

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Commits on Apr 20, 2019

• Doc fixes

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Commits on Mar 23, 2019

• Low complexity fitting fully implemented

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Commits on Mar 22, 2019

• Add low-complexity filtering and plotting

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Commits on Mar 20, 2019

• Catch length-2 filtering arguments when processing single-end data

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Commits on Mar 12, 2019

• Merge remote-tracking branch 'origin/master'

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• Fix removePrimers bug

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Commits on Feb 25, 2019

• Add the opportunity to pass qualityType to all functions which read Fastq files using ShortRead::readFasta (including via yield()). (benjjneb#688)

  

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Commits on Jan 8, 2019

• Add check for zero primer matches to dada2:::removePrimers

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Commits on Sep 4, 2018

• Add trimRight to filtering functions

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Commits on Aug 31, 2018

• Renamed primer.fwd to orient.fwd in filter functions

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Commits on Jul 20, 2018

• Warn primer-matching w/ indels not supported

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Commits on Feb 28, 2018

• Fixed imports for removePrimers

  

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Commits on Feb 27, 2018

• fastqFilter bug

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• LR Fixes

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Commits on Feb 5, 2018

• Fix importFrom Biostrings narrow bug

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Commits on Jan 11, 2018

• Fixed NA bug when checking minQ

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Commits on Dec 10, 2017

• Added seqComplexity to calculate complexity of DNA sequences

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• Stubbed in seqComplexity function

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Commits on Oct 13, 2017

• Propagate error message from filterAndTrim(..., multithread=TRUE)

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Commits on Oct 5, 2017

• Collapse and short tax ref bug fixes

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  bcallah

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Commits on Aug 13, 2017

• Added warning when no reads pass filterAndTrim

  

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Commits on Jul 25, 2017

• Allow Ns in isBimeraDenovoTable

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Commits on Jul 11, 2017

• Handle mclapply under Windows (benjjneb#281)

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Commits on Jul 8, 2017

• Check input files exist in filterAndTrim

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Commits on Jun 8, 2017

• BugFix: Pass-through compress flag from trimAndFilter

  

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Commits on Apr 24, 2017

• Bump to 1.5 devel version

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Commits on Apr 10, 2017

• Version bump

  

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• rm.phix = TRUE by default

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