New bulk 5'-RACE supported protocol, non-overlaping reads rescue#343

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JustBioinfo wants to merge 12 commits intonf-core:devfrom JustBioinfo:master

+274-9

Commits on Jun 1, 2024

Merge pull request nf-core#337 from nf-core/dev
ggabernet
authored

Commits on Aug 5, 2024

Add new 5'-RACE protocol support
Justine Pollet
committed
New presto_maskprimers_align_trim module and adjust presto_umi subworkflow for this new 5'-RACE support
Justine Pollet
committed

Commits on Aug 6, 2024

presto_maskprimers_align_trim module conf and update nextflow_schema JSON
Justine Pollet
committed
pipeline work with the new protocol
Justine Pollet
committed

Commits on Aug 7, 2024

pipeline work with new option --assemblepairs_join but with --failed parameter in nexflow user custom conf files for PRESTO_ASSEMBLEPAIRS_UMI process via args.
Justine Pollet
committed
default value for --assemblepairs_join option, PRESTO_ASSEMBLEPAIRS_UMI always output failed reads
Justine Pollet
committed
qc graph not include join reads
Justine Pollet
committed

Commits on Aug 8, 2024

fix test profile
Justine Pollet
committed
update doc/usage.md
Justine Pollet
committed

Commits on Aug 20, 2024

Merge branch 'dev' into master
ggabernet
authored

Commits on Nov 15, 2024

Merge branch 'dev' into master
ggabernet
authored