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nf-core
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ampliseq
Amplicon sequencing analysis workflow using DADA2 and QIIME2
https://nf-co.re/ampliseq
MIT License
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Fasta input isnt compatible with most filters
#629
d4straub
closed
1 year ago
2
Prevent rare error with sample sheet edge case
#628
d4straub
closed
1 year ago
2
Cutadapt failing due to renaming of files
#627
susheelbhanu
closed
1 year ago
8
RENAME_RAW_DATA_FILES - Process requirement exceeds available CPUs
#626
amalacrino
closed
1 year ago
2
Manuscript methods section and VSEARCH cluster to pipeline report
#625
d4straub
closed
1 year ago
2
fix typo in quick start command
#624
d4straub
closed
1 year ago
1
Error in command
#623
dixi06
closed
1 year ago
2
add VSEARCH cluster
#622
a4000
closed
1 year ago
1
Update nextflow_schema.json
#621
jtangrot
closed
1 year ago
1
Update multiqc methods
#620
d4straub
closed
1 year ago
2
add SBDI export and phyloseq output to summary report
#619
d4straub
closed
1 year ago
2
Add sintax support for all available databases
#618
jtangrot
opened
1 year ago
1
Check for SBDI compatibility for sintax
#617
jtangrot
closed
1 year ago
2
Use nf-validation on samplesheet
#616
d4straub
closed
1 year ago
3
Dev
#615
a4000
closed
1 year ago
2
Merging template updates 2.9
#614
d4straub
closed
1 year ago
1
Potential problem with demultiplexing and proposed solution
#613
a4000
opened
1 year ago
1
Proposal: Phyloseq R object creation at end of pipeline
#612
a4000
closed
1 year ago
7
Proposal: Seqkit stats when demultiplexing
#611
a4000
opened
1 year ago
2
Proposal: Lowest Common Ancestor (LCA) module for assigning taxonomy
#610
a4000
opened
1 year ago
2
Proposal: LULU ASV post-clustering curation
#609
a4000
closed
1 year ago
9
Proposal: Blastn as an alternative classifier
#608
a4000
opened
1 year ago
6
Important! Template update for nf-core/tools v2.9
#607
nf-core-bot
closed
1 year ago
0
Error at process NFCORE_AMPLISEQ:AMPLISEQ:DADA2_QUALITY (FW)
#606
BCArg
closed
1 year ago
4
Sbdi pr2 v5
#605
jtangrot
closed
1 year ago
3
Release 2.6.1
#604
d4straub
closed
1 year ago
2
PREPARE: Release 2.6.1
#603
maxulysse
closed
1 year ago
2
bump-version-2.7.0dev
#602
d4straub
closed
1 year ago
2
Release 2.6.0
#601
d4straub
closed
1 year ago
3
bump-version
#600
d4straub
closed
1 year ago
2
PR2 exact species assignment now without taxa ending with sp.
#599
d4straub
closed
1 year ago
1
update workflow figure
#598
d4straub
closed
1 year ago
2
Change from file size to read counts as sample read threshold
#597
d4straub
closed
1 year ago
1
Add PR2 v5.0.0
#596
d4straub
closed
1 year ago
1
Restructure reporting of mindepth in QIIME2_DIVERSITY_CORE
#595
d4straub
closed
1 year ago
2
fix metadata documentation
#594
d4straub
closed
1 year ago
2
Strategy for PR2 species assignments
#593
andand
closed
1 year ago
7
Documentation error: "Metadata files are not required to have additional metadata columns"
#592
d4straub
closed
1 year ago
1
Update unite to version 9.0
#591
jtangrot
closed
1 year ago
6
Process `NFCORE_AMPLISEQ:AMPLISEQ:METADATA_ALL (Metadata.tsv)` terminated with an error exit status (126)
#590
Truongphi20
closed
1 year ago
2
QIIME2_DIVERSITY_CORE gaps in mindepth piecewise
#589
lam-c
closed
1 year ago
3
Use new PR2 release for 18S (PR2 version 5.0.0)
#588
andand
closed
1 year ago
2
The pipeline has been running and staying on the interface
#587
freemutation
closed
1 year ago
4
activate codon filter and use pandas instead of QIIME2 environment
#586
d4straub
closed
1 year ago
2
docker cutadapt file not found
#585
scheckley
closed
1 year ago
2
ERROR about NFCORE_AMPLISEQ:AMPLISEQ:PICRUST
#584
linshizuowei
closed
1 year ago
4
Bad file descriptor
#583
weber8thomas
closed
1 year ago
4
fix diversity analysis
#582
d4straub
closed
1 year ago
1
Error executing Ampliseq through pbs/Torque executor
#581
pehenrique
closed
1 year ago
5
Feat/init ci nf test
#580
sateeshperi
closed
1 year ago
8
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