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nf-core
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dualrnaseq
Analysis of Dual RNA-seq data - an experimental method for interrogating host-pathogen interactions through simultaneous RNA-seq.
https://nf-co.re/dualrnaseq
MIT License
18
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30
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Important! Template update for nf-core/tools v3.0.2
#107
nf-core-bot
opened
1 month ago
0
Important! Template update for nf-core/tools v3.0.1
#106
nf-core-bot
closed
1 month ago
1
Important! Template update for nf-core/tools v3.0.0
#105
nf-core-bot
closed
1 month ago
1
Important! Template update for nf-core/tools v2.14.1
#104
nf-core-bot
closed
1 month ago
1
Important! Template update for nf-core/tools v2.14.0
#103
nf-core-bot
closed
6 months ago
1
Important! Template update for nf-core/tools v2.13.1
#102
nf-core-bot
closed
6 months ago
1
Important! Template update for nf-core/tools v2.13
#101
nf-core-bot
closed
8 months ago
0
Important! Template update for nf-core/tools v2.12
#100
nf-core-bot
closed
9 months ago
1
Important! Template update for nf-core/tools v2.11.1
#99
nf-core-bot
closed
9 months ago
1
Important! Template update for nf-core/tools v2.11
#98
nf-core-bot
closed
11 months ago
1
96 mapping statistics
#97
blazejszczerba
opened
11 months ago
1
Mapping statistics STAR-HTSEQ modules in subworkflow and modules - proof of concept
#96
blazejszczerba
opened
11 months ago
0
HTSEQ subworkflow
#95
lgrochowalski
opened
11 months ago
0
tximport module
#94
bozmik
closed
1 year ago
1
Important! Template update for nf-core/tools v2.10
#93
nf-core-bot
closed
11 months ago
1
update unzip files
#92
bozmik
closed
1 year ago
1
Feature/count reads
#91
mauro-saporita
opened
1 year ago
0
added bbduk module - added trimming functionalities - fixed registry setting - added adapters for test
#90
mauro-saporita
opened
1 year ago
0
Important! Template update for nf-core/tools v2.9
#89
nf-core-bot
closed
1 year ago
1
Are there plans to port the workflow to DSL2?
#88
scontente
opened
1 year ago
5
Refactoring uncompress
#87
mauro-saporita
closed
1 year ago
1
Tximport hots module
#86
opetryk
closed
1 year ago
0
add test data for loading 2 genome.fasta files, and modify PREPARE_x_TRANSCRIPTOME modules
#85
bozmik
closed
1 year ago
1
Refactoring uncompress
#84
mauro-saporita
closed
1 year ago
1
Important! Template update for nf-core/tools v2.8
#83
nf-core-bot
closed
1 year ago
1
emit extracted annotations
#82
bozmik
closed
1 year ago
1
fix prepare_reference_files subworkflow
#81
bozmik
closed
1 year ago
1
fix salmon alignment based subworkflow (STAR, SALMON_QUANT, COMBINE_QUANTIFICATION_RESULTS_SALMON, SALMON_SPLIT_TABLE_EACH, SALMON_SPLIT_TABLE_COMBINED)
#80
bozmik
closed
1 year ago
1
fix Salmon SA subworkflow
#79
bozmik
closed
1 year ago
1
Added a draft of HTSEQ module and STAR_HTSEQ subworkflow
#78
bozmik
closed
1 year ago
1
initial commit for replace data
#77
blazejszczerba
closed
1 year ago
1
Extract processed reads
#76
opetryk
closed
1 year ago
1
Create STAR_HTSEQ subworkflow + HTSEQ module
#75
pkoscielnybio
opened
1 year ago
0
Convert all replace modules in PREPARE_REFERENCE_DATA
#74
blazejszczerba
closed
1 year ago
0
rethink check_replicates process for DSL2
#73
bozmik
opened
1 year ago
0
Extract annotations
#72
pkoscielnybio
closed
1 year ago
1
56-fix subworkflow after adding trna
#71
blazejszczerba
closed
1 year ago
1
'Parent' is hard-coded in the replace_attribute_host_genome_gff_star_salmon process
#70
bozmik
opened
1 year ago
0
Add module extract processed reads to the pipeline
#69
opetryk
closed
1 year ago
1
add small host trna gff file to test dataset
#68
bozmik
closed
1 year ago
0
Salmon quantification
#67
opetryk
closed
1 year ago
0
Add a module for count_total_reads and count_total_read_pairs processes
#66
DorotaPikulArdigen
opened
1 year ago
0
56 create transcriptiome workflow
#65
blazejszczerba
closed
1 year ago
0
create a module for generating bacterial transcriptome fasta file
#64
bozmik
opened
1 year ago
0
fix #58
#63
bozmik
closed
1 year ago
0
Add salmon quantification to salmon_alignment_base subworkflow
#62
opetryk
closed
1 year ago
1
Feature/salmon split table
#61
mauro-saporita
closed
1 year ago
0
Update salmon split table process to DSL2
#60
mauro-saporita
closed
1 year ago
1
Star modules
#59
opetryk
closed
1 year ago
1
salmon quantification is not executed for all samples
#58
bozmik
closed
1 year ago
1
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