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Commits on Aug 22, 2024

• Merge pull request #150 from af8/master

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  valeu

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Commits on Aug 17, 2024

• fixed variable name to allow detection of control sample on command line

  af8

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Commits on Feb 23, 2024

• Update main.cpp to allow for the external value of breakPointThreshold_BAF in [BAF]

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  valeu

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Commits on Dec 12, 2022

• MakeGraph - faster and easier to run

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  valeu

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Commits on Dec 8, 2022

• add header

  valeu

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• Adding a script to filter large VCF files

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  valeu

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Commits on Dec 1, 2022

• A script to create files in ABSOLUTE FORMAT

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  valeu

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Commits on Nov 29, 2022

• update readme with run example information

  valeu

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Commits on Nov 14, 2022

• Update README.md

  valeu

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Commits on Oct 14, 2019

• Merge pull request #66 from calkan/master

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  valeu

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• CRAM support added w/samtools. Multithreaded computation is added for samtools. CRAM for sambamba is disabled as there is a sambamba bug when reading CRAMs.

  calkan

  committed
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Commits on Sep 12, 2019

• v11.6 - updating the executable freec

  valeu

  committed
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• v11.6 - GCnorm

  valeu

  committed
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• v11.6 - forcing GC normalization for cases when minipileup is provided for both test and control files

  valeu

  committed
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Commits on Aug 9, 2019

• version 11.6: fixed one more CNV printing issue for chrX/Y

  valeu

  committed
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• to check

  valeu

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Commits on Jul 29, 2019

• Merge pull request #59 from open-estuary/master

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  valeu

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Commits on Jul 22, 2019

• Makefile.freec

  xusailor

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Commits on Aug 5, 2018

• v11.5 - fixed: reading .fai file for non-human genomes

  valeu

  committed
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Commits on Apr 24, 2018

• v11.4 - fix Seg Fault for exome-seq without GC-correction

  valeu

  committed
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Commits on Jan 23, 2018

• v11.3 - better fit for contamination value for ploidy 1, 3 and 4

  valeu

  committed
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• v11.2: better fit of GC-content bias in contaminated samples

  valeu

  committed
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Commits on Dec 5, 2017

• version 11.1. Bug reading minipileup for control experiment - fixed

  valeu

  committed
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Commits on Jul 10, 2017

• v11.0 - added mistake-proofing for the step parameter

  valeu

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Commits on Jul 6, 2017

• versio 10.9 - fix missing BAFs

  valeu

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Commits on Jun 26, 2017

• restore old makeGraph_Chromosome.R

  valeu

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• v10.8 - minimalCoveragePerPosition bug corrected

  valeu

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Commits on Jun 7, 2017

• current scripts

  valeu

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• Merge pull request #24 from matthdsm/master

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  valeu

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Commits on May 30, 2017

• fixed script shebangs for multi env use

  matthdsm

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Commits on May 11, 2017

• Can work when all chromosomes are Y and X..

  valeu

  committed
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• Add some additional check

  valeu

  committed
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Commits on May 10, 2017

• Nothing cchanged

  valeu

  committed
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Commits on Apr 23, 2017

• Fixing bugs: BAF fit

  valeu

  committed
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Commits on Apr 20, 2017

• version 10.6

  valeu

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