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dahak-metagenomics
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dahak
benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
https://dahak-metagenomics.github.io/dahak
BSD 3-Clause "New" or "Revised" License
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Cleaned up run command
#133
brooksph
opened
5 years ago
0
Updated link
#132
brooksph
closed
5 years ago
0
Removed errant forward slash
#131
brooksph
closed
6 years ago
0
Merge HPC docs into HPC scripts branch
#130
charlesreid1
closed
6 years ago
0
Add cluster configuration files and HPC quickstart
#129
charlesreid1
closed
6 years ago
0
Docs to pdf
#128
charlesreid1
closed
6 years ago
3
added Jupyter notebooks + fixed contrib guidelines + removed old files
#127
brooksph
closed
6 years ago
2
Fix kaiju links
#126
charlesreid1
closed
6 years ago
0
code for parsing and visualizing abricate results
#125
stephenturner
opened
6 years ago
4
Read filtering Workflow: Not producing a MultiQC report
#124
nalbright
opened
6 years ago
1
singularity bind point error in workflow
#123
cgrahlm
opened
6 years ago
0
Running non-shakya datasets through read filtering: Workflow Error
#122
nalbright
opened
6 years ago
1
Taxonomic Classification with Sourmash (Really Quick Start): Documentation Error?
#121
nalbright
opened
6 years ago
2
MultiQC not in Read Filtering, but in Assembly workflows
#120
nalbright
opened
6 years ago
0
add cluster.json hpc cluster config file
#119
charlesreid1
closed
6 years ago
4
Snakemake/assembly mem params
#118
charlesreid1
closed
6 years ago
0
Add memory parameters for assembly to workflow parameters file
#117
charlesreid1
closed
6 years ago
1
Assembly workflow outputs questions: what to interpret and pipe into comparison workflow?
#116
nalbright
opened
6 years ago
0
Update memory parameter for megahit to be 80% instead of 20%
#115
ctb
closed
6 years ago
3
simplify quickstart docs
#114
ctb
closed
6 years ago
2
Error running assembly workflow on Ubuntu: Error in rule assembly_megahit:
#113
nalbright
opened
6 years ago
6
snakemake error: when timed out and snakemake became locked- Resolved
#112
nalbright
closed
6 years ago
2
UBUNTU read filtering: Error: trimmomatic: command not found
#111
nalbright
opened
6 years ago
1
UBUNTU read filtering: Error: FastQ no found
#110
nalbright
closed
6 years ago
6
Anvi’o
#109
kternus
opened
6 years ago
0
CoMeta for Metagenome Comparisons
#108
kternus
opened
6 years ago
0
Docker for LMAT
#107
kternus
closed
6 years ago
0
Docker for KrakenHLL
#106
kternus
closed
6 years ago
0
quickstart snakemake command fail
#105
nalbright
closed
6 years ago
2
Trouble getting started with Quickstart
#104
nalbright
opened
6 years ago
4
create conda environment
#103
nalbright
closed
6 years ago
4
running quickstart tutorial fails: squashfs-tools not available
#102
stephenturner
opened
6 years ago
16
remove PS1 `$` prompt from copy-able commands in documentation
#101
stephenturner
closed
6 years ago
2
incomplete sentence in documentation at 'what targets should I use'
#100
stephenturner
closed
6 years ago
1
installation with conda
#99
stephenturner
opened
6 years ago
3
Add quick start and comparison documentation
#98
charlesreid1
closed
6 years ago
2
Assembly workflow questions
#97
kternus
closed
6 years ago
12
Read filtering workflow errors out
#96
brooksph
closed
6 years ago
11
Add comparison Snakefile + singularity
#95
charlesreid1
closed
6 years ago
5
Removed redundant text from README
#94
brooksph
closed
6 years ago
2
Read filtering questions
#93
kternus
closed
6 years ago
9
Add assembly documentation
#92
charlesreid1
closed
6 years ago
3
Add assembly Snakefile + singularity
#91
charlesreid1
closed
6 years ago
9
Add assembly documentation
#90
charlesreid1
closed
6 years ago
1
problem with kaiju step of taxonomic classification
#89
charlesreid1
closed
6 years ago
7
Describe how sourmash handles two equivalent matches
#88
kternus
closed
6 years ago
0
Options for visualizing sourmash gather results
#87
kternus
closed
6 years ago
8
How can specific sequences from metagenomes be extracted for further analysis?
#86
kternus
opened
6 years ago
1
Could an optional workflow/script be provided to downsample datasets to 1%?
#85
kternus
opened
6 years ago
2
Add read filtering and taxonomic classification documentation
#84
charlesreid1
closed
6 years ago
5
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