Published April 9, 2020
| Version 1.5
Software
Open
nf-core/methylseq: nf-core/methylseq version 1.5 [ Belated Dodo ]
Creators
- 1. Science for Life Laboratory
- 2. @Gregor-Mendel-Institute
- 3. Boehringer Ingelheim
- 4. National Genomics Infrastructure
- 5. QBiC @qbicsoftware
- 6. Comparative Bioinformatics, CRG
- 7. @SciLifeLab | Karolinska Institutet
- 8. INRA
- 9. The Francis Crick Institute
Description
New features
- Added multicore support for
TrimGalore!
- Improved the multicore support for Bismark methXtract for more parallelisation (#121)
- Added
--cytosine_report
option to tell Bismark to give reports for all cytosines in the genome. - Added options
--bismark_align_cpu_per_multicore
and--bismark_align_cpu_per_multicore
to customise how Bismark align--multicore
is decided (#124)
- New: pigz
2.3.4
- Python base
2.7
>3.7.3
- FastQC
0.11.8
>0.11.9
- TrimGalore!
0.6.4
>0.6.5
- HiSAT2
2.1.0
>2.2.0
- Bismark
0.22.2
>0.22.3
- Qualimap
2.2.2c
>2.2.2d
- Picard
2.21.3
>2.22.2
- MethylDackel
0.4.0
>0.5.0
- MultiQC
1.7
>1.8
- Fixed bug where the iGenomes config was loaded after the references were set (#121)
- Removed awsbatch config profile because it is now served by nf-core/configs
- Tidied up the summary log messages when starting the pipeline
- Fewer messages saying what you're not doing, sanitised the order of some logs and removed a few things
- Slightly refactored the code for trimming parameters
- Updated template to tools 1.9
- Fixed error where MethylDackel would consume the Nextflow channels and not work with more than one sample #140
Files
nf-core/methylseq-1.5.zip
Files
(1.8 MB)
Name | Size | Download all |
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md5:cf956d062577fd37692693e64c8598ee
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Additional details
Related works
- Is supplement to
- https://github.com/nf-core/methylseq/tree/1.5 (URL)