Commits

Branch selector

 master

User selector

All users

Datepicker

All time

Commit History

Commits on Aug 27, 2020

• add empty output in case no SNPs are good

  pinbo

  authored
  bc78719

  Copy full SHA for bc78719

Commits on Jun 19, 2020

• str(ref_pos) in line53

  pinbo

  authored
  b90a702

  Copy full SHA for b90a702

Commits on May 30, 2020

• Merge branch 'master' of https://github.com/pinbo/SNP_Primer_Pipeline

  pinbo

  committed
  5e2d6a6

  Copy full SHA for 5e2d6a6

• add an an example of extracting sequences with samtools faidx, much faster

  pinbo

  committed
  ba6246f

  Copy full SHA for ba6246f

Commits on Apr 8, 2020

• Create LICENSE

  pinbo

  authored
  cb1a177

  Copy full SHA for cb1a177

Commits on Nov 11, 2019

• update readme

  pinbo

  committed
  4d02808

  Copy full SHA for 4d02808

• add a step-by-step tutorial

  pinbo

  committed
  9ca3968

  Copy full SHA for 9ca3968

Commits on Oct 31, 2019

• update SNP2polymarker.xml.example help part

  pinbo

  committed
  80bfe20

  Copy full SHA for 80bfe20

Commits on Oct 26, 2019

• update README

  pinbo

  committed
  bb539e8

  Copy full SHA for bb539e8

Commits on Oct 24, 2019

• add a files folder for pictures

  pinbo

  committed
  f115c66

  Copy full SHA for f115c66

• updated readme and add steps on implementing the tools in Galaxy

  pinbo

  committed
  9cbb462

  Copy full SHA for 9cbb462

• rename xml to xml.example for users to setup

  pinbo

  committed
  06e9d45

  Copy full SHA for 06e9d45

• change python command to python2 and rename xml files to xml.example

  pinbo

  committed
  080d8b1

  Copy full SHA for 080d8b1

Commits on Oct 15, 2019

• fix a bug cmd12

  pinbo

  committed
  3272797

  Copy full SHA for 3272797

• output non-aligned sequences if neither CAPS nor KASP markers were designed

  pinbo

  committed
  c9aea45

  Copy full SHA for c9aea45

• uncomment finding overlap enzyme site

  pinbo

  committed
  4736efe

  Copy full SHA for 4736efe

Commits on Oct 14, 2019

• product size change to first <300 bp

  pinbo

  committed
  d3e75ab

  Copy full SHA for d3e75ab

Commits on Oct 12, 2019

• restore the orignal get_fasta function, and replace - in raw fasta after reading

  pinbo

  committed
  3e640a9

  Copy full SHA for 3e640a9

• get_fasta function now ignore lines starts with 'alignment_raw....' from SNP Primer Design Pipeline output

  pinbo

  committed
  ea30f7d

  Copy full SHA for ea30f7d

• remove - in a fasta input file so I can use directly the aligned fastas

  pinbo

  committed
  971f8dd

  Copy full SHA for 971f8dd

• fix a bug: uncomment the variation variable

  pinbo

  committed
  8340c34

  Copy full SHA for 8340c34

• lowercase the CAPS input sequence

  pinbo

  committed
  ca11b9c

  Copy full SHA for ca11b9c

• design CAPS primer anyway since indels already have size differences

  pinbo

  committed
  ff7fd8e

  Copy full SHA for ff7fd8e

• bug fix for selecting enzymes

  pinbo

  committed
  a1690b1

  Copy full SHA for a1690b1

• fix a bug on enzyme determination

  pinbo

  committed
  cbe26a1

  Copy full SHA for cbe26a1

Commits on Sep 3, 2019

• update readme

  pinbo

  committed
  795f7a2

  Copy full SHA for 795f7a2

• move settings_common up to one scope

  pinbo

  committed
  c58fdf9

  Copy full SHA for c58fdf9

• add pick anyway to xml

  pinbo

  committed
  06eecc4

  Copy full SHA for 06eecc4

• add common settings for easy changes

  pinbo

  committed
  8848fb0

  Copy full SHA for 8848fb0

• add common settings for easy changes

  pinbo

  committed
  0ec0e03

  Copy full SHA for 0ec0e03

Commits on Sep 2, 2019

• change pick_primer_anyway to 0

  pinbo

  committed
  ddae907

  Copy full SHA for ddae907

• bug fix

  pinbo

  committed
  d1034d6

  Copy full SHA for d1034d6

• bug fix

  pinbo

  committed
  9c4e232

  Copy full SHA for 9c4e232

• change position now starts from 1; add 40 bp flanking sequences of dCAPS change position

  pinbo

  committed
  ad04976

  Copy full SHA for ad04976

• add potential primer sequence for dCAPS primers for easy checking

  pinbo

  committed
  57e773b

  Copy full SHA for 57e773b

Pagination

Previous

Next