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Commits on Sep 21, 2021

• added write markdown and body function

  isugif

  committed
  f20a7cf

Commits on Apr 12, 2020

• fully automated step 2 for sentieon

  aseetharam

  authored
  7946e36

Commits on Apr 11, 2020

• made the sention script more readable

  aseetharam

  authored
  37fd409

• added the GATK automation script using Sention

  aseetharam

  authored
  77ed565

Commits on Dec 6, 2019

• awk script to merge splice sites of first round STAR

  aseetharam

  committed
  a078c38

• new scripts

  aseetharam

  committed
  e96916f

Commits on Oct 13, 2019

• new

  aseetharam

  committed
  e96dd15

Commits on Mar 12, 2019

• merge changes

  Show description for 59f8753
  aseetharam

  committed
  59f8753

• scripts for generating vcf quality metrics distribution using VCF/indel files as input

  aseetharam

  committed
  eca75e3

Commits on Feb 25, 2019

• script for aligning cds to genome to get the gff3 file

  aseetharam

  committed
  1537ce5

• script for creating ini file for i-AdHore, using just the gff files

  

  Arun Somwarpet-Seetharam - staff

  committed
  582508d

Commits on Nov 8, 2018

• added the basespace download script

  aseetharam

  committed
  e635f80

Commits on Oct 26, 2018

• new files

  aseetharam

  committed
  87a77d7

Commits on Aug 3, 2018

• added bunch of run scripts

  

  Arun Seetharam

  committed
  2e4fd2c

Commits on Mar 8, 2018

• added new scripts and modified histat2 to check completion of steps before proceeding

  aseetharam

  committed
  3d57e6f

Commits on Dec 9, 2017

• runGSNAP.sh fixed

  aseetharam

  committed
  34f1632

• extensive alignment statistcs for bam file using picard tools and qualimap

  aseetharam

  committed
  45ca3bb

Commits on Dec 8, 2017

• added run alignment summary script

  aseetharam

  committed
  d316a8b

Commits on Dec 6, 2017

• added commands to collect summary metrics after alignment

  aseetharam

  committed
  20cbd26

Commits on Dec 4, 2017

• gsnap edited to make it faster

  aseetharam

  committed
  ade8763

Commits on Dec 1, 2017

• added run bowtie2 script

  aseetharam

  committed
  57c3fb7

Commits on Oct 8, 2017

• fixed the file genomescope run script

  aseetharam

  committed
  e6ea584

• fixed runRedundans script

  aseetharam

  committed
  5d67074

• redundans pipeline, easy and fastway to run!

  aseetharam

  committed
  ba389de

Commits on Oct 5, 2017

• blast database location correction

  aseetharam

  committed
  2827b1b

Commits on Oct 4, 2017

• modified genomescope

  aseetharam

  committed
  9be47df

Commits on Oct 2, 2017

• fixed module reference

  remkv6

  committed
  82f38dd

• Added a line to sort fasta file by name prior to creating databases.

  remkv6

  committed
  86549db

Commits on Sep 29, 2017

• Merge branch 'master' of https://github.com/ISUgenomics/common_analyses

  remkv6

  committed
  4c7c66e

• added some comments for usage

  remkv6

  committed
  54540c9

Commits on Sep 22, 2017

• removed the pipe

  aseetharam

  authored
  89170b9

Commits on Aug 31, 2017

• fixed typo

  aseetharam

  committed
  dbee406

• added the runBWA script

  aseetharam

  committed
  ab7a3d6

Commits on Apr 20, 2017

• trinity updated to handle single end reads (they still use se reads)

  aseetharam

  committed
  4100ab1

Commits on Mar 30, 2017

• minor fixes for the paths and profiles

  aseetharam

  committed
  3138064

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