Commit graph

1952 commits

Author SHA1 Message Date
drpatelh
7b3bc338d4 Add info about GitHub API 2020-08-06 13:04:23 +01:00
drpatelh
154d2b0c08 Add separate bullet 2020-08-06 12:57:53 +01:00
drpatelh
4f82982d04 Truncate console text 2020-08-06 12:55:36 +01:00
drpatelh
9bd5596732 Add citation to TOC 2020-08-06 12:52:55 +01:00
drpatelh
680c58315a Add citation 2020-08-06 12:52:04 +01:00
drpatelh
9c8d3af66e Add direct Slack link 2020-08-06 12:46:36 +01:00
drpatelh
3e0c63a0a0 Update badge 2020-08-06 12:42:45 +01:00
drpatelh
3428157910 Add badges 2020-08-06 12:39:33 +01:00
drpatelh
d510854648 Add note about other commands 2020-08-06 12:27:01 +01:00
drpatelh
9142ad7016 Move terminology to bottom 2020-08-06 12:17:24 +01:00
drpatelh
c2f797d820 Update existing pipeline usage 2020-08-06 12:12:40 +01:00
drpatelh
2c9cd2d89b Update main script 2020-08-06 12:00:38 +01:00
drpatelh
83b61fcccd Update README 2020-08-06 12:00:24 +01:00
drpatelh
530b4c1bd9 Add test directory 2020-08-06 11:32:38 +01:00
drpatelh
b7d0ee043e Initial commit 2020-08-06 11:32:18 +01:00
drpatelh
f021ab119b Initial commit 2020-08-06 11:32:11 +01:00
drpatelh
ab512be9aa Initial commit 2020-08-06 11:31:52 +01:00
Harshil Patel
d286fdf995
Merge pull request #54 from drpatelh/master
Hard copy functions.nf
2020-08-05 18:39:53 +01:00
drpatelh
f315a7b3c4 Hard copy files 2020-08-05 18:38:27 +01:00
Harshil Patel
1073ea47fa
Merge pull request #53 from drpatelh/master
Add in chipseq modules
2020-08-05 17:46:59 +01:00
drpatelh
71a6a9decc Fix markdownlint 2020-08-05 17:46:23 +01:00
drpatelh
9988dacfc6 Fix yaml lint 2020-08-05 17:32:47 +01:00
drpatelh
ab8a9025a0 Copy across test data and docs for trimgalore 2020-08-05 17:28:25 +01:00
drpatelh
50fce8b3cf Copy across test data and docs for samtools sort 2020-08-05 17:28:09 +01:00
drpatelh
de9d33da12 Copy across test data and docs for samtools index 2020-08-05 17:27:58 +01:00
drpatelh
fb697eca2f Copy across test data and docs for bwa mem 2020-08-05 17:27:42 +01:00
drpatelh
da4dcee934 Copy across test data and docs for bwa index 2020-08-05 17:27:28 +01:00
drpatelh
4f590ff239 Remove some more modules 2020-08-05 17:25:34 +01:00
drpatelh
1edc58a36b Pinch docs and delete redundant modules 2020-08-05 17:24:40 +01:00
drpatelh
5d224740cd Change path 2020-08-05 17:17:58 +01:00
drpatelh
137db462a7 Add samtools 2020-08-05 17:17:47 +01:00
drpatelh
993d0d5743 Add picard 2020-08-05 17:17:41 +01:00
drpatelh
9d168cf29e Add deeptools 2020-08-05 17:17:34 +01:00
drpatelh
f481899049 Add subread 2020-08-05 17:17:19 +01:00
drpatelh
20e6d847a3 Add trimgalore 2020-08-05 17:17:12 +01:00
drpatelh
c5bb9c2fde Add macs2 2020-08-05 17:17:05 +01:00
drpatelh
f61ad7506a Add homer 2020-08-05 17:16:56 +01:00
drpatelh
71d7aecf74 Add preseq 2020-08-05 17:16:45 +01:00
drpatelh
e94676a2b2 Add phantompeakqualtools 2020-08-05 17:16:34 +01:00
drpatelh
6fe4ec16df Add ucsc 2020-08-05 17:16:23 +01:00
drpatelh
3b1669c317 Add bwa mem 2020-08-05 17:16:08 +01:00
drpatelh
7938a60a02 Add bwa index 2020-08-05 17:15:56 +01:00
drpatelh
7f5ca56413 Soft-link functions to top-level module dir 2020-08-05 17:03:04 +01:00
Harshil Patel
7f13463d0b
Merge pull request #52 from drpatelh/master
Why isn't GitHub API refreshing with these changes?!
2020-08-05 16:36:25 +01:00
drpatelh
4a65c77e58 deprecated/trim_galore/Dockerfile 2020-08-05 16:34:07 +01:00
drpatelh
3ec4f63fd8 Use correct link to fastqc 2020-08-05 16:28:42 +01:00
Harshil Patel
2b6a68260b
Merge pull request #51 from drpatelh/master
Test latest FastQC implementation
2020-08-05 16:10:41 +01:00
drpatelh
c08e6959a5 Reorganise everything 2020-08-05 16:09:25 +01:00
Harshil Patel
88eac382be
Merge pull request #41 from MaxUlysse/bwa-mem2
add module for bwa-mem2 index
2020-08-05 15:45:43 +01:00
Harshil Patel
95a91032ce
Merge pull request #42 from JoseEspinosa/bedtools_dev
Add modules complement, genomecov, intersect, merge, sort for bedtools
2020-08-05 15:45:17 +01:00