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Commits on Apr 2, 2025

• update site

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Commits on Oct 8, 2020

• # stackr 2.2.0 2020-10-08

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Commits on Dec 10, 2019

• * work on documentation

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  Thierry Gosselin

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Commits on Dec 5, 2019

• edit vignette and website

  

  Thierry Gosselin

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Commits on Dec 4, 2019

• * Remove noise function: `clean_fq` for unique reads with low coverage and distinct reads with high coverage.

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  Thierry Gosselin

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Commits on Dec 3, 2019

• `run_cstacks`: now split population map/samples to generate the catalog incrementally

  

  Thierry Gosselin

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Commits on Dec 1, 2019

• `extract_catalog_sql_ids`: new function that extracts the sql ids from a stacks catalog

  

  Thierry Gosselin

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Commits on Nov 13, 2019

• updated `run_ustacks`

  

  Thierry Gosselin

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Commits on Nov 5, 2019

• - new version with better summary functions to help during thresholds selection.

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  Thierry Gosselin

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Commits on Apr 21, 2019

• * update doc

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  thierrygosselin

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Commits on Jun 14, 2018

• ready for stacks v.2.0b

  thierrygosselin

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Commits on Mar 15, 2018

• `run_ustacks`: ready for stacks v2 beta 9

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Commits on Mar 8, 2018

• renamed `normalize_samples` to `normalize_reads`

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Commits on Mar 1, 2018

• * implementing `normalize_samples`

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Commits on Feb 5, 2018

• `stackr` is working nice with stacks v.2 beta8 and waiting for final and stable version

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Commits on Dec 5, 2017

• generate a strata file when not provided

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Commits on Nov 16, 2017

• Changed `genotypes_summary` to `summary_genotypes` to follow stackr naming.

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Commits on Oct 16, 2017

• updated functions from stackr to include `genotypes_summary` (from radiator)

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• work on functions to remove dependency of packages just used a couple of times.

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Commits on Oct 15, 2017

• updated `summary_pstacks`

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Commits on Oct 12, 2017

• **v.2.0.0 2017-10-11**

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Commits on Sep 22, 2017

• updated `run_ustacks` to better detect fq format

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Commits on Aug 28, 2017

• updated doc and better message output in `run_process_radtags`

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• updated vignette image

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Commits on Aug 18, 2017

• **v.1.0.0 2017-08-18**

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Commits on Aug 16, 2017

• * no longer needed, found in `radiator`

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Commits on Aug 15, 2017

• **v.0.5.8 2017-08-14**

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Commits on Jul 2, 2017

• * work on stacks components of stackr

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Commits on Jul 1, 2017

• edits

  thierrygosselin

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Commits on Jun 17, 2017

• # stackr v.0.5.7 2017-06-17

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Commits on Jun 13, 2017

• continue to work on the summary stacks

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Commits on Jun 8, 2017

• # stackr v.0.5.6 2017-06-08

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Commits on May 29, 2017

• * bug fix: PEGAS v.0.10 no longer output a data frame object like previous version which caused an error while reading some VCF. This fix won't impact previous version of PEGAS.

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Commits on May 4, 2017

• `genomic_converter`: now works with haplotype file to convert in other supported format.

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Commits on May 2, 2017

• `tidy_genomic_data`:

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