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cidgoh
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bacpaq
Bacterial Genomics workflow for short(Illumina) and long-read (Oxford Nanopore) sequencing data
MIT License
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fixing typo for multiqc definition in configuration
#64
anwarMZ
closed
2 days ago
0
MultiQC format needs improvement
#63
anwarMZ
opened
3 months ago
1
add customized multiqc config file
#62
azmigueldario
closed
3 months ago
2
Re-branding nf-seqqc to bacpaq
#61
anwarMZ
closed
4 months ago
4
Cleaned up dev branch
#60
anwarMZ
closed
6 months ago
0
#39 CRISPR Subworkflow
#59
jimmyliu1326
closed
7 months ago
0
28 workflow for genome annotation
#58
anwarMZ
closed
7 months ago
0
fixing typos in the gene_annotation
#57
anwarMZ
closed
8 months ago
0
Updated Readme file and conf/test.config. Shovill not working
#56
mayee123
closed
9 months ago
0
#38 sub-workflow for pangenome analysis
#55
jonathho
closed
8 months ago
2
43 create container for peppan
#54
azmigueldario
closed
8 months ago
1
30 create a nextflow module for resfinder
#53
KijinKims
closed
9 months ago
0
#33 create a nextflow module for virsorter2
#52
jimmyliu1326
closed
9 months ago
0
#31 sub-workflow for phage prediction
#51
jimmyliu1326
closed
8 months ago
0
migrated qc database checks from main to seqqc workflow
#50
jimmyliu1326
closed
9 months ago
0
Samplesheet for annotation workflow and stage dummy file when skipping QC
#49
anwarMZ
closed
8 months ago
0
Validation of qc databases shoud be moved to qc workflow
#48
anwarMZ
closed
9 months ago
0
modules for amrprediction in amr_annotation subworkflow
#47
anwarMZ
closed
8 months ago
1
#34 create a sub workflow for plasmid prediction
#46
jimmyliu1326
closed
10 months ago
0
41 create a nextflow module for crisprcastyper
#45
jimmyliu1326
closed
9 months ago
0
32 sub workflow for gene annotation
#44
anwarMZ
closed
8 months ago
1
Create container for PEPPAN
#43
azmigueldario
closed
9 months ago
2
update main file for multiple worklfow options
#42
anwarMZ
closed
11 months ago
0
Create a nextflow module for CRISPRCasTyper
#41
jimmyliu1326
closed
7 months ago
1
Create a nextflow module for PEPPAN
#40
anwarMZ
closed
7 months ago
3
Create a Sub-workflow for CRISPR prediction and typing
#39
jimmyliu1326
closed
7 months ago
1
Sub-workflow for pangenome analysis
#38
anwarMZ
closed
7 months ago
3
Create a nextflow module for eggnog-mapper2
#37
jimmyliu1326
closed
8 months ago
1
Create a Sub-workflow for Protein functional annotation
#36
jimmyliu1326
closed
3 months ago
0
Update the README file
#35
anwarMZ
closed
3 months ago
1
Create a Sub-workflow for Plasmid prediction
#34
jimmyliu1326
closed
7 months ago
1
Create a Nextflow module for Virsorter2
#33
jimmyliu1326
closed
7 months ago
1
Sub-workflow for gene annotation
#32
anwarMZ
closed
7 months ago
1
Sub-workflow for Phage prediction
#31
jimmyliu1326
closed
7 months ago
2
Create a nextflow module for ResFinder
#30
anwarMZ
closed
7 months ago
1
Sub-workflow for AMR detection
#29
anwarMZ
closed
3 months ago
2
Workflow for genome annotation
#28
anwarMZ
closed
3 months ago
0
Add description for the parameters exposed to the workflow
#27
anwarMZ
opened
11 months ago
0
Fixed error related to checkm_db parameter
#26
jimmyliu1326
closed
1 year ago
0
Added parameter checking for all databases and bugfixes to BUSCO
#25
matnguyen
closed
1 year ago
0
Fixed issue with Samtools fastq being unable to work on nanopore sequences
#24
matnguyen
closed
1 year ago
0
Updated conf/eagle_2.config
#23
davidtong28
closed
1 year ago
1
Handling null values in assembly QC
#22
jimmyliu1326
closed
1 year ago
0
Updated assembly_qc.nf
#21
jimmyliu1326
closed
1 year ago
0
David
#20
davidtong28
closed
1 year ago
0
Creating a zero file when Shovill gives an error
#19
davidtong28
closed
1 year ago
0
Changes to rasusa and confindr
#18
ASridhar94
closed
1 year ago
0
Moved concatenation of nanopore sequencing runs to outside of QC
#17
matnguyen
closed
1 year ago
0
Nanopore taxonomy QC
#16
mayee123
closed
1 year ago
0
Exposed dragonflye/shovill parameters to modules.config
#15
matnguyen
closed
1 year ago
0
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