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metagenlab
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zAMP
zAMP is a bioinformatic pipeline designed for convenient, reproducible and scalable amplicon-based metagenomics
https://zamp.readthedocs.io/en/latest/
MIT License
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Update setup and DB-processing docs
#65
farchaab
opened
5 days ago
0
update readthedocs
#64
vicasze
closed
6 days ago
0
update readthedocs
#63
vicasze
closed
6 days ago
0
Vcs docu
#62
vicasze
closed
2 weeks ago
0
Convergent taxa with greengenes2 2024.09
#61
farchaab
opened
2 weeks ago
0
Vcs docu
#60
vicasze
closed
2 weeks ago
0
Add docker container
#59
farchaab
closed
2 weeks ago
0
Added example slurm profile
#58
farchaab
closed
3 weeks ago
0
Added compatibilty with SLURM profiles
#57
farchaab
closed
3 weeks ago
0
Updated cutadapt parameters
#56
vicasze
closed
4 weeks ago
2
Insilico docu
#55
vicasze
closed
1 month ago
0
Bioconda recipe
#54
vicasze
closed
1 month ago
0
Updated SRA download
#53
farchaab
closed
2 months ago
0
merge in-silico module branches
#52
farchaab
closed
2 months ago
0
PR to fix krona plots
#51
daulet-a
closed
3 months ago
0
KRONA plots not grouped by samples
#50
daulet-a
closed
3 months ago
0
updating in silico module
#49
vicasze
closed
2 months ago
0
Add working run command
#48
farchaab
closed
4 months ago
0
Add cli wrapper and species names collapsing
#47
farchaab
closed
4 months ago
0
Database processing update
#46
farchaab
closed
4 months ago
0
Fix formatting and NameError
#45
farchaab
closed
6 months ago
0
NameError in make_input_lists.py
#44
farchaab
closed
6 months ago
0
Add tool versions and references
#43
farchaab
opened
6 months ago
0
Database processing with latest SILVA and greengenes versions
#42
farchaab
closed
4 months ago
2
Use cli wrapper
#41
farchaab
closed
4 months ago
0
Release 0.9.19
#40
farchaab
closed
6 months ago
2
Key error with DADA2
#39
valscherz
closed
7 months ago
0
Key error when running the pipeline from SRA samples + SRA toolkits outdated
#38
valscherz
closed
7 months ago
0
Update under_the_hood.rst
#37
valscherz
closed
7 months ago
0
AttributeError with snakemake <7.32.4
#36
farchaab
closed
7 months ago
3
Update KRONA_plots.R
#35
Sedreh
closed
2 years ago
0
Update make_input_lists.py
#34
Sedreh
closed
3 years ago
0
Sedreh
#33
Sedreh
closed
3 years ago
1
DAJ's corrections
#32
valscherz
closed
4 years ago
0
config file
#31
da2798
closed
4 years ago
0
Dev
#30
valscherz
closed
4 years ago
1
Copy reference databases hash codes for traceability.
#29
valscherz
opened
4 years ago
0
Manage single and paired-end paths
#28
valscherz
closed
4 years ago
0
Single pair new try
#27
valscherz
closed
4 years ago
0
correct txt to tsv
#26
valscherz
closed
4 years ago
0
Update snakemake
#25
valscherz
closed
4 years ago
1
Singularity container
#24
valscherz
closed
4 years ago
0
RDP
#23
valscherz
closed
4 years ago
0
Reads in the wrong direction are going through the DADA2 pipeline
#22
valscherz
opened
4 years ago
0
Aldex2 transformed clr counts are not giving the expected output
#21
valscherz
opened
4 years ago
0
Light
#20
valscherz
closed
4 years ago
0
Dereplication of the V1V2 region of ref DB EzBioCloud
#19
valscherz
opened
4 years ago
1
Transform
#18
valscherz
closed
5 years ago
0
working decipher dada2 rdp tax assign
#17
valscherz
closed
5 years ago
0
In silico validation
#16
valscherz
closed
5 years ago
0
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