Mahesh Binzer-Panchal
705ad7c3a1
Merge branch 'master' into meryl_unionsum
2022-05-09 16:20:01 +02:00
Mahesh Binzer-Panchal
83a266ea70
Merge branch 'master' into meryl_unionsum
2022-05-09 16:16:08 +02:00
FriederikeHanssen
adc4ff868c
Merge branch 'master' into samtools_convert
2022-05-09 16:15:24 +02:00
Mahesh Binzer-Panchal
8d86988632
Merge branch 'master' into meryl/histogram
2022-05-09 15:39:32 +02:00
Rike
ef5f145342
Generalize Bam2Cram do either conversion
2022-05-09 15:22:54 +02:00
Mahesh Binzer-Panchal
ce97c87b5d
Merge branch 'master' into meryl_unionsum
2022-05-09 13:51:55 +02:00
Mahesh Binzer-Panchal
129f57ccd9
Add meryl histogram
2022-05-09 08:50:28 +00:00
Mahesh Binzer-Panchal
ad4f8389cb
Add meryl unionsum
2022-05-09 08:33:21 +00:00
Mahesh Binzer-Panchal
32b0fdc9d9
Merge branch 'master' into meryl_count
2022-05-09 10:05:28 +02:00
Matthias De Smet
0752b82c9f
Merge branch 'master' into update/snapaligner
2022-05-06 18:57:37 +02:00
Mahesh Binzer-Panchal
67481c6d54
Start Meryl count
2022-05-06 15:04:04 +00:00
Matthias De Smet
26d2231e85
fix linting
2022-05-06 14:16:38 +02:00
Mahesh Binzer-Panchal
a9f23bb477
Merge branch 'master' into busco
2022-05-06 13:49:01 +02:00
Matthias De Smet
09e729ad41
added sha256sum
2022-05-06 10:28:14 +02:00
Matthias De Smet
853b623969
new module: md5sum
2022-05-06 09:20:40 +02:00
Sateesh Peri
3414d3aba3
Merge branch 'master' into busco
2022-05-05 10:08:55 -04:00
JIANHONG OU
a8bc386ea3
Merge branch 'master' into motus_downloaddb
2022-05-05 09:36:25 -04:00
Carpanzano
9083d3bb3d
integrating suggestions from PR comments, including recovery of tests for kronadb and more detailed explanation of input database in yml file
2022-05-05 13:51:41 +02:00
Mahesh Binzer-Panchal
58ea709f7f
Merge branch 'master' into busco
2022-05-05 09:34:14 +02:00
James A. Fellows Yates
35b5ba673f
Merge branch 'master' into motus_downloaddb
2022-05-04 20:58:08 +02:00
Simone Carpanzano
162f8edf54
Merge branch 'master' into firstbranch
2022-05-04 16:35:25 +02:00
Carpanzano
6b8ca501ed
fixing suggestions from PR
2022-05-04 16:34:52 +02:00
Nicolas Vannieuwkerke
42bdc5471e
Changed the pytest location of happy
2022-05-04 15:40:34 +02:00
Nicolas Vannieuwkerke
f875aec46b
Split the module into two parts
2022-05-04 15:29:48 +02:00
Mahesh Binzer-Panchal
5986a3efbf
Merge branch 'master' into busco
2022-05-04 15:09:54 +02:00
Nicolas Vannieuwkerke
c517ce9b4d
Added the module and some simple testing
2022-05-04 13:42:12 +02:00
Mahesh Binzer-Panchal
5f4781adaa
Merge branch 'master' into busco
2022-05-03 15:27:10 +02:00
Chris Cheshire
829183ee84
Merge branch 'master' into rp3-add-shigatyper
2022-05-03 12:16:54 +01:00
Chris Cheshire
6015478b72
Merge branch 'master' into add-slimfastq
2022-05-03 12:11:19 +01:00
Chris Cheshire
d7fb969a74
Merge branch 'master' into rp3-add-shigatyper
2022-05-03 12:10:23 +01:00
Mahesh Binzer-Panchal
ddbe6e8f40
Merge branch 'master' into busco
2022-05-03 10:48:03 +02:00
Matthias De Smet
1687bfcb85
Merge branch 'master' into add-slimfastq
2022-05-03 08:22:49 +02:00
Matthias De Smet
a67c06af81
Merge branch 'master' into vardict-java
2022-05-03 08:22:19 +02:00
Moritz E. Beber
16aa3915e3
feat: add module for slimfastq
2022-05-02 23:16:59 +02:00
Sateesh Peri
c56b371713
Merge branch 'master' into srst2/srst2
2022-05-02 12:13:11 -04:00
JIANHONG OU
b14f30936e
Merge branch 'nf-core:master' into motus_downloaddb
2022-05-02 08:42:09 -04:00
Matthias De Smet
bf416f2307
Merge branch 'master' into vardict-java
2022-05-02 10:43:47 +02:00
Matthias De Smet
a7ed1477ee
Merge branch 'master' into tool/elprep-merge
2022-04-28 21:14:30 +02:00
Sateesh Peri
f5c4aecde5
Merge branch 'master' into srst2/srst2
2022-04-28 13:49:51 -04:00
Robert A. Petit III
4b6ee6fc14
Merge branch 'master' into rp3-add-shigatyper
2022-04-28 09:51:36 -06:00
nvnieuwk
c9404ed266
Merge branch 'master' into vardict-java
2022-04-28 14:30:19 +02:00
JIANHONG OU
cdefbec669
add kimporttext module ( #1560 )
...
* add kimporttext module
* fix the Prettier error.
* fix the Prettier error.
* fix the test.yml
* fix the test.yml
* Update modules/krona/ktimporttext/meta.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/krona/ktimporttext/meta.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/krona/ktimporttext/meta.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/krona/ktimporttext/meta.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/krona/ktimporttext/meta.yml
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* update the test files;
simplify the main script of krona/ktimporttext.
* update the test file url for krona ktimporttext
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
2022-04-28 08:16:26 -04:00
jvhagey
839ee59ca1
adding srst2 module
2022-04-27 18:01:28 -04:00
Robert A. Petit III
30bd93602f
Merge branch 'master' into rp3-add-shigatyper
2022-04-27 11:37:13 -06:00
Nicolas Vannieuwkerke
024c992ca7
created the module
2022-04-27 11:12:58 +02:00
Maxime U. Garcia
569e07f0af
add samtools/bamtocram modules ( #1561 )
...
* add new samtools/bamtocram module
* fix md5sum
* remove md5sum
* Update modules/samtools/bamtocram/main.nf
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
2022-04-25 14:32:49 +02:00
Matthias De Smet
978f665c0a
Merge branch 'master' into tool/elprep-merge
2022-04-24 10:08:29 +02:00
Sateesh Peri
378fa5fbb4
new module: GAMMA ( #1532 )
...
* initial version of gamma module
* remove trailing whitespace
* prettier fix
* hardcode version number
* Update modules/gamma/main.nf
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/gamma/main.nf
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Update modules/gamma/meta.yml
Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com>
* update meta and prettier
* add whitespaces
* add fasta output and tests
Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com>
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
2022-04-23 10:12:06 -04:00
Sateesh Peri
8f2561c07f
Merge branch 'master' into rp3-add-shigatyper
2022-04-22 09:01:36 -04:00
Matthias De Smet
b4d2e374a0
Merge branch 'master' into tool/elprep-merge
2022-04-22 11:35:48 +02:00
