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Commits on Oct 2, 2023

• Merge pull request #111 from genxnetwork/issue-110

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  ruslanvakhitov

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  ef3f7cc

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Commits on Sep 27, 2023

• [ISSUE-110] For some reason compressed bcf doesn't have .gz at the end

  Jahysama

  committed
  b05986d

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• [ISSUE-110] Changed tbi indexes to csi indexes

  Jahysama

  committed
  4c098d8

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Commits on Sep 14, 2023

• Merge pull request #109 from genxnetwork/snakemake-from-src

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  pavelnikonorov

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Commits on Aug 15, 2023

• [Issue-106] Switch to official Snakemake version

  Jahysama

  committed
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Commits on Jul 28, 2023

• Merge pull request #108 from genxnetwork/dummy_simulated_samples

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  pavelnikonorov

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• Fixed ibis_king workflow

  aleksandr-medvedev-msc

  committed
  a997db9

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• Removed 3 more custom conda envs from snakemake rules

  aleksandr-medvedev-msc

  committed
  c29c655

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• Fixed polars, pydor and other dependencies, removed conda envs

  aleksandr-medvedev-msc

  committed
  6e1784d

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Commits on Jul 18, 2023

• Configurable simbig background augmentation

  aleksandr-medvedev-msc

  committed
  13bf44e

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Commits on Jul 17, 2023

• Merge pull request #100 from genxnetwork/develop

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  pavelnikonorov

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  23e423c

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• Merge branch 'master' into develop

  alex-medvedev-msc

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• Merge pull request #107 from genxnetwork/libarchive13-fix

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  pavelnikonorov

  authored
  6b26921

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• libarchive13 buster fix

  

  Grigorii Bezborodov

  committed
  3bae9a6

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Commits on Jun 29, 2023

• Optional simulation background augmentation

  aleksandr-medvedev-msc

  committed
  d143813

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Commits on Jun 27, 2023

• Simple background augmentation in simbig workflow

  aleksandr-medvedev-msc

  committed
  25508f8

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Commits on Jun 26, 2023

• Generation of new simulation samples using simple mix of alternative allele counts

  aleksandr-medvedev-msc

  committed
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Commits on Jun 23, 2023

• grape launches several ibis processes in parallel for different chromosomes

  aleksandr-medvedev-msc

  committed
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Commits on May 15, 2023

• ersa matching is done in parallel

  aleksandr-medvedev-msc

  committed
  ac603c6

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• WIP! per-chromosome ibis processing

  aleksandr-medvedev-msc

  committed
  9af598b

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• simbig workflow tries to generate --sim-samples-number samples

  aleksandr-medvedev-msc

  committed
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Commits on Apr 21, 2023

• passing zero parameters values to select_bad_samples will now bypass relevant filters

  aleksandr-medvedev-msc

  committed
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• script to select only modern samples from aadr dataset

  aleksandr-medvedev-msc

  committed
  2242d1e

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Commits on Apr 18, 2023

• Merge pull request #105 from genxnetwork/hotfix/liftover

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  alex-medvedev-msc

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• Merge branch 'master' into hotfix/liftover

  alex-medvedev-msc

  authored
  407b5d6

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• Fixed liftover memory args and shell

  aleksandr-medvedev-msc

  committed
  e980224

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• Added downloading eagle back to the Dockerfile

  aleksandr-medvedev-msc

  committed
  c87aa06

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• slightly decreased number of simulated relatives for simbig pipeline

  aleksandr-medvedev-msc

  committed
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• eagle phasing should work

  aleksandr-medvedev-msc

  committed
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Commits on Apr 14, 2023

• Added back annotate id bcftools rule to standard preprocessing

  aleksandr-medvedev-msc

  committed
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Commits on Apr 13, 2023

• Temp fixes in pre_imputation_check

  aleksandr-medvedev-msc

  committed
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Commits on Apr 12, 2023

• Updated pre_imputation_check to not require snp ids in only rs or id:chr:ref:alt form

  aleksandr-medvedev-msc

  committed
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Commits on Apr 11, 2023

• Merge pull request #103 from genxnetwork/fix_simbig_workflow

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  alex-medvedev-msc

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• Restored standard preprocessing workflow functionality

  aleksandr-medvedev-msc

  committed
  26fcb87

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Commits on Apr 10, 2023

• remove_relatives workflow now outputs unrelated samples

  aleksandr-medvedev-msc

  committed
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