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Commits on May 7, 2020

• Corrected module requirements for ONT reporting step

  

  Hector Galvez

  committed
  3ae8224

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• Corrected folder name

  

  Hector Galvez

  committed
  0b78613

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• Merge branch 'master' of github.com:pphector/scripts

  

  Hector Galvez

  committed
  c4c02ff

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• Added Nanopore reporting template and script

  

  Hector Galvez

  committed
  a12e10c

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Commits on Apr 7, 2020

• modified the GC bias and sexDeterm scripts so that they can be used on other projects

  

  Hector Galvez

  committed
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Commits on Mar 31, 2020

• Merge branch 'master' of github.com:pphector/scripts

  

  Hector Galvez

  committed
  ea98b8a

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• Added scripts to compute GC bias and Sex determination for nanopore reporting

  

  Hector Galvez

  committed
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Commits on Feb 28, 2020

• Added template for CANU assembly

  

  Hector Galvez

  committed
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Commits on Feb 20, 2020

• Merge branch 'master' of github.com:pphector/scripts

  

  Hector Galvez

  committed
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• Added a standard nanopore CIT script to use with the CIT dataset I prepared

  

  Hector Galvez

  committed
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Commits on Dec 16, 2019

• Added simple script that converts a single-line fasta to a line-wrapped fasta

  

  Hector Galvez

  committed
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Commits on Sep 13, 2019

• Merge branch 'master' of github.com:pphector/scripts

  

  Hector Galvez

  committed
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• Added simple python script to trim FASTA files to a certain length. Optimized for ONT long-reads

  

  Hector Galvez

  committed
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Commits on Aug 15, 2019

• Corrected get_data script to incorporate platform selection argument. Still defaults to HiSeq

  

  Hector Galvez

  committed
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Commits on Jul 2, 2019

• modified get data script to use genpipes modules

  

  Hector Galvez

  committed
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Commits on Jun 19, 2019

• Added PBS template file

  

  Hector Galvez

  committed
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Commits on May 6, 2019

• Added a template slurm script with appropriate headers to make it easier to write custom job scripts in SLURM clusters

  

  José Héctor Gálvez López

  committed
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Commits on Apr 18, 2019

• Corrected some errors in the minimap script, and added more functionality

  

  Hector Galvez

  committed
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Commits on Apr 17, 2019

• Added a template script for Minimap2 alignment

  

  Hector Galvez

  committed
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Commits on Apr 11, 2019

• Corrected scheduler for beluga

  

  Jose Hector Galvez

  authored and

  Jose Hector Galvez

  committed
  d7afcfe

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• Changed genpipes prep scripts to support beluga

  

  Jose Hector Galvez

  authored and

  Jose Hector Galvez

  committed
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Commits on Apr 1, 2019

• Added template for Supernova output script

  

  José Héctor Gálvez López

  committed
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Commits on Mar 29, 2019

• Merge branch 'master' of github.com:pphector/scripts

  

  Hector Galvez

  committed
  5e00d8a

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• Added PBsuite_setup.sh to ensure compatibility with PB_jelly across servers

  

  Hector Galvez

  committed
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Commits on Mar 25, 2019

• Added QUAST template script

  

  José Héctor Gálvez López

  committed
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Commits on Mar 22, 2019

• Merge branch 'master' of github.com:pphector/scripts

  

  Hector Galvez

  committed
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• Added PBJelly protocol xml template and corrected PBjelly template script

  

  Hector Galvez

  committed
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• Added PBJelly template script (PBS)

  

  Hector Galvez

  committed
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Commits on Mar 13, 2019

• Final correction to biomart script to make it compatible with older versions of ENSEMBL

  

  Hector Galvez

  committed
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• Re-coded the tx2gene R script for added functionality and flexibility. Now follows Mugqic_tools conventions

  

  Hector Galvez

  committed
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Commits on Feb 28, 2019

• Changed pipeline prep file to make it more appropriate for testing pipelines

  

  Hector Galvez

  committed
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Commits on Feb 6, 2019

• Merge branch 'master' of github.com:pphector/scripts

  

  Hector Galvez

  committed
  6f0a505

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• Added bam to fastq script for PB reads

  

  Hector Galvez

  committed
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Commits on Jan 28, 2019

• added the BioMart tx2gene script

  

  Hector Galvez

  committed
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• Placed R markdown document with extra steps for P. Moffatt under version control

  

  Jose Hector Galvez

  authored and

  Jose Hector Galvez

  committed
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