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Develop #879

Merged
merged 20 commits into from
Jan 25, 2023
Merged

Develop #879

merged 20 commits into from
Jan 25, 2023

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katsikora
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katarzyna.otylia.sikora@gmail.com and others added 17 commits December 20, 2022 11:20
mm10 organism yaml blacklist
c7d0c20
@katsikora
Merge pull request #867 from maxplanck-ie/allelic_fixes
efd4f8a 
mm10 organism yaml blacklist
@WardDeb
re split to ignore ;-delimit in str fields gtf.
2906b6d
@WardDeb
Merge branch 'develop' of github.com:maxplanck-ie/snakepipes into fil…
ed27ff3 
…tergtf
@WardDeb
force table read for featurecounts as gene names could include spaces.
efd8b02
@WardDeb
some gtfs have xRNA rather then transcript
0267095 
gene -> transcript -> exon order is also not always followed.
Merge branch 'develop' of github.com:maxplanck-ie/snakepipes into dev…
4c531c1 
…elop
- changed start version
c55ef76 
- edited star shell for mRNA pipeline
deeptools 3.5.1 requires python < 3.8, therefore the version is set i…
e4dafef 
…n shared.yaml. This can be changed together with the update of deeptools to the next version
added a comment in shared.yaml
31d4d66
@LeilyR
Merge pull request #873 from maxplanck-ie/leily_mrna
19f5b1d 
changes in STAR command and version
@WardDeb
Merge branch 'develop' of github.com:maxplanck-ie/snakepipes into fil…
2871f8e 
…tergtf
updated the news.rst
1ca3b01
@LeilyR
Merge pull request #875 from maxplanck-ie/leily_dev
3cc38e9 
updated the news.rst file
condaDir update
8619c63
News.rst
3588d3d
@katsikora
Merge pull request #876 from maxplanck-ie/config_KS
460ef77 
Config ks
@katsikora katsikora requested a review from LeilyR January 20, 2023 13:44
WardDeb
WardDeb approved these changes Jan 25, 2023
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looks good to me

@katsikora katsikora merged commit 27cfcbc into master Jan 25, 2023
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@WardDeb WardDeb WardDeb approved these changes

@LeilyR LeilyR Awaiting requested review from LeilyR

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3 participants
@katsikora @WardDeb @LeilyR