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Commits on Mar 14, 2022

• Updated README

  Show description for 9ebb0cb
  pickettbd

  authored
  9ebb0cb

Commits on May 29, 2021

• added missing param to step3 call and allowed for fasta headers with spaces in step4

  pickettbd

  committed
  c9b8448

Commits on Mar 1, 2021

• multiple fixes after testing on single GT sample

  pickettbd

  committed
  69c3434

Commits on Feb 21, 2021

• Delete notes.txt

  pickettbd

  authored
  31dad2a

• updated instructions, added step to create samples list

  pickettbd

  committed
  6f884e1

• Update INSTRUCTIONS.md

  pickettbd

  authored
  cb849b7

Commits on Feb 20, 2021

• updated readme and started instructions

  pickettbd

  committed
  812279d

• added plotting and rearranged indexing asm

  pickettbd

  committed
  84b6472

• added snpable mask and rearranged step order accordingly

  pickettbd

  committed
  844c252

Commits on Feb 14, 2021

• updated steps 5-7 to work with multiple samples (not tested)

  pickettbd

  committed
  d992356

Commits on Feb 12, 2021

• rearranged steps 4 and 5. initial pass at step 8 (not tested), including shifting in step numbers

  pickettbd

  committed
  75fa0da

Commits on Feb 10, 2021

• switched chunks from 42 to 52, removed duplicate msmc slurm scripts

  pickettbd

  committed
  102483e

• fixed error with dependency setup

  pickettbd

  committed
  1ee6a5f

• updated bootstrap reps and limited number of msmcBootstrap jobs to run at once

  pickettbd

  committed
  c828105

Commits on Feb 4, 2021

• updated msmc parameters

  pickettbd

  committed
  988de2b

• added bootstrap output concatenation step

  pickettbd

  committed
  4f23133

• updated logging information

  pickettbd

  committed
  a574a93

Commits on Feb 3, 2021

• fixed a failsafe

  pickettbd

  committed
  d5190c5

• setup msmc bootstrap

  pickettbd

  committed
  59b3176

• added bootstrap prep

  pickettbd

  committed
  2c316f1

Commits on Feb 1, 2021

• added msmc step

  pickettbd

  committed
  41ade6d

Commits on Jan 29, 2021

• fleshed out readme

  pickettbd

  committed
  26bea9a

• added readme

  pickettbd

  committed
  af17b0e

Commits on Jan 28, 2021

• switched to single core, added comments

  pickettbd

  committed
  be23a04

• added additional reporting

  pickettbd

  committed
  e491ec3

• step 7 tested, attempting to run on full dataset

  pickettbd

  committed
  82d4bb3

• added step 7 - testing ready

  pickettbd

  committed
  76cc7d5

• added indexing subset assembly and calc approx per base depth of alignment

  pickettbd

  committed
  a9d4179

Commits on Jan 27, 2021

• added indexing and subsetting of assembly

  pickettbd

  committed
  7d97548

• initial commit

  pickettbd

  committed
  9c6f945