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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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Release 0.9.20
#46
farchaab
opened
3 weeks ago
0
Fix formatting and NameError
#45
farchaab
closed
1 month ago
0
NameError in make_input_lists.py
#44
farchaab
closed
1 month ago
0
Add tool versions and references
#43
farchaab
opened
1 month ago
0
Database processing with latest SILVA version
#42
farchaab
opened
1 month ago
2
Use snaketool wrapper
#41
farchaab
opened
1 month ago
0
Release 0.9.19
#40
farchaab
closed
1 month ago
2
Key error with DADA2
#39
valscherz
closed
2 months ago
0
Key error when running the pipeline from SRA samples + SRA toolkits outdated
#38
valscherz
closed
2 months ago
0
Update under_the_hood.rst
#37
valscherz
closed
2 months ago
0
AttributeError with snakemake <7.32.4
#36
farchaab
closed
2 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
3 years ago
0
config file
#31
da2798
closed
3 years ago
0
Dev
#30
valscherz
closed
3 years ago
1
Copy reference databases hash codes for traceability.
#29
valscherz
opened
3 years ago
0
Manage single and paired-end paths
#28
valscherz
closed
3 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
4 years ago
0
working decipher dada2 rdp tax assign
#17
valscherz
closed
4 years ago
0
In silico validation
#16
valscherz
closed
4 years ago
0
New merge
#15
valscherz
closed
4 years ago
0
In silico validation
#14
valscherz
closed
4 years ago
0
Merge DB process to Dev
#13
valscherz
closed
5 years ago
0
Dev
#12
valscherz
closed
5 years ago
2
picrust from rarefied data too
#11
valscherz
closed
5 years ago
0
Burton tma
#10
valscherz
closed
5 years ago
0
Burton tma
#9
valscherz
closed
5 years ago
0
Sample with less reads than the rarefaction cut-off are dropped
#8
valscherz
closed
5 years ago
2
alpha diversity plot is looping over all facors several times
#7
valscherz
closed
5 years ago
0
Database processing
#6
valscherz
opened
5 years ago
3
Generate a sequence length plot with assignment for QC purpose
#5
valscherz
opened
5 years ago
0
Improve alpha diversity plots
#4
valscherz
closed
5 years ago
0
Improve DADA2 script
#3
valscherz
closed
5 years ago
3
A "Rplots.pdf" at the root of the project directory
#2
valscherz
closed
5 years ago
1
Can't open /miniconda3/622b4111/lib/R/etc/ldpaths
#1
valscherz
closed
5 years ago
3