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Commits on Mar 2, 2021

• Edit environment yml to allow for generation of maf files

  

  Andrea Talenti

  committed
  a281491

• Do not perform the netSyntenic if GSAlign is run

  

  Andrea Talenti

  committed
  694838c

• Generate maf file from the final chain liftover file

  

  Andrea Talenti

  committed
  1798353

• Document the use of NCBI datasets

  

  Andrea Talenti

  committed
  e8db771

Commits on Feb 28, 2021

• Add support for ncbi datasets

  

  Andrea Talenti

  committed
  0cad912

Commits on Feb 19, 2021

• Remove -sen from custom configuration of GSAlign

  

  Andrea Talenti

  committed
  f9e33cb

• Add detailed readme of presets

  

  Andrea Talenti

  committed
  00edccf

Commits on Feb 18, 2021

• Better help message

  

  Andrea Talenti

  committed
  b38a5c9

Commits on Feb 17, 2021

• Minor changes to readme.md

  

  Andrea Talenti

  committed
  992b64f

• Improve README.md

  

  Andrea Talenti

  committed
  641b064

• Fully remove last from main.nf

  

  Andrea Talenti

  committed
  254c26f

• Drop last modules and keep them in separate development branch

  

  Andrea Talenti

  committed
  66463eb

• Disable last as aligner

  

  Andrea Talenti

  committed
  3f8c6f2

• Remove limitation on identity threshold for GSAlign same mode

  

  Andrea Talenti

  committed
  7a58716

• Minor changes to README.md

  

  Andrea Talenti

  committed
  74497f2

Commits on Feb 15, 2021

• Add zlib to conda recipe for compatibility with older systems

  

  Andrea Talenti

  committed
  8c21d7c

Commits on Dec 28, 2020

• Minor edit to README.md

  

  Andrea Talenti

  committed
  302377d

Commits on Dec 25, 2020

• Fix configuration file for eddie

  

  Andrea Talenti

  committed
  cc8c341

Commits on Dec 12, 2020

• Fix bug in axtChain for far and same distances

  

  Andrea Talenti

  committed
  926d5c5

Commits on Dec 9, 2020

• Optimize GSAlign for other distances other than near

  

  Andrea Talenti

  committed
  e99d786

• Fix importing the wrong process in GSAlign workflow

  

  Andrea Talenti

  committed
  86a139c

Commits on Dec 8, 2020

• Fix use of memory in configuration file for local GSAlign

  

  Andrea Talenti

  committed
  d617623

• Fix use of memory in configuration file for GSAlign

  

  Andrea Talenti

  committed
  e0cd18e

• Fix use of cores in configuration file for GSAlign

  

  Andrea Talenti

  committed
  6180837

Commits on Dec 7, 2020

• More resources to GSAlign

  

  Andrea Talenti

  committed
  25674d2

• More resources to GSAlign

  

  Andrea Talenti

  committed
  494f9b7

• Fix bug preventing generation of lift file when runnning GSAlign

  

  Andrea Talenti

  committed
  c24c5e5

• Fix bug when running GSAlign

  

  Andrea Talenti

  committed
  e22a792

• Fix bug when runningGSAlign

  

  Andrea Talenti

  committed
  870062b

• When running GSAlign use whole-genome vs whole-genome

  

  Andrea Talenti

  committed
  8d92d5d

• Fix far GSAlign identity threshold

  

  Andrea Talenti

  committed
  5e2b02f

• Fix far command for GSAlign

  

  Andrea Talenti

  committed
  b3bee3a

• Update version number in manifest

  

  Andrea Talenti

  committed
  61f59b2

• Better resource handling on single machine

  

  Andrea Talenti

  committed
  e03a970

• Add last-split to processing of alignments

  

  Andrea Talenti

  committed
  3168601

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