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aomlomics
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tourmaline
Amplicon sequence processing workflow using QIIME 2 and Snakemake
BSD 3-Clause "New" or "Revised" License
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Add functionality for Tronko taxa assignment
#154
ksilnoaa
opened
1 week ago
0
Incorporate filtering capabilities to V2
#153
ksilnoaa
opened
2 weeks ago
0
How to prevent Snakemake from re-running rules when their output is already present
#152
lukenoaa
opened
2 weeks ago
0
Write script to iterate through parameters and do multiple Tourmaline runs
#151
ksilnoaa
opened
3 weeks ago
0
Try out V2 workfllow with newest qiime2 version.
#150
ksilnoaa
opened
3 weeks ago
0
Write rules for dada2 SE and deblur
#149
ksilnoaa
opened
3 weeks ago
0
Incorporate BLCA from Anacapa as a taxonomy option
#148
ksilnoaa
opened
3 weeks ago
0
Fix taxa_barplot rule in V2
#146
ksilnoaa
closed
3 weeks ago
0
Merging new master commits to develop branch
#145
ksilnoaa
closed
3 weeks ago
0
fixed Docker link in README
#144
lukenoaa
closed
1 month ago
0
Added variable for tourmaline path to notebooks, added snakemake log files to .gitignore
#143
lukenoaa
closed
1 month ago
0
Test Jupyter notebooks with current Tourmaline notebook, updated package commands
#142
ksilnoaa
opened
1 month ago
1
Add new changes from master to develop (no conflicts)
#141
lukenoaa
closed
2 months ago
0
add new notebook tourmaline_taxonomy_notebook.ipynb #139 #113, delete…
#140
lukenoaa
closed
2 months ago
0
Create taxonomy notebook to make taxonomy stacked bar charts and treemap charts
#139
lukenoaa
closed
2 months ago
1
Delete any mention of evenness_group_significance.qzv in pseudorules and report
#138
lukenoaa
closed
2 months ago
1
Create single stats file for sample step
#137
ksilnoaa
opened
3 months ago
0
Include script to demultiplex raw reads by sample barcodes and marker
#136
ksilnoaa
opened
3 months ago
0
Update fastqc_per_base_sequence_quality_dropoff.py
#135
ksilnoaa
opened
3 months ago
2
Tourmaline initial set-up in v2
#134
ksilnoaa
opened
3 months ago
1
Update tourmaline_python_notebook.ipynb
#133
lukenoaa
closed
3 months ago
0
Updating develop with 2 recent commits to master
#132
lukenoaa
closed
3 months ago
0
Update develop from master
#131
lukenoaa
closed
3 months ago
0
Stop using distplot in Python notebook
#130
lukenoaa
closed
3 months ago
0
Typo in Python notebook
#129
lukenoaa
closed
3 months ago
0
Create table of number of reads retained per sample at each step
#128
lukenoaa
closed
3 weeks ago
4
Installing multiqc with Rosetta running
#127
lukenoaa
opened
3 months ago
0
User-provided file path for reference database/classifier
#126
lukenoaa
opened
5 months ago
1
Tourmaline 2.0 mega-issue
#125
lukenoaa
opened
5 months ago
0
Add rescript qiime plugin to Tourmaline Docker
#124
ksilnoaa
opened
5 months ago
0
Check for metadata beta_group_column prior to diversity step, not at beginning
#123
ksilnoaa
opened
6 months ago
0
config.yaml updates
#122
lukenoaa
closed
3 months ago
0
Syntax warning for invalid escape sequences
#121
lukenoaa
closed
3 months ago
0
Delete _config.yaml (not being used)
#120
lukenoaa
closed
3 months ago
0
Check comments/instructions about filtering
#119
lukenoaa
opened
7 months ago
0
Documentation updates
#118
lukenoaa
opened
8 months ago
0
rule check_inputs_params_se: missing param
#117
rckarns8
closed
8 months ago
1
Add code guidance to export outputs to phyloseq
#116
ksilnoaa
opened
10 months ago
0
Make the diversity step optional
#115
ksilnoaa
opened
10 months ago
0
Update qiime2 osx/linux install instructions
#114
ksilnoaa
opened
11 months ago
0
Generate taxonomy information that is separated by taxonomic rank
#113
ksilnoaa
opened
1 year ago
3
Relate config file with AOML-MIMARKS metadata terms
#112
ksilnoaa
opened
1 year ago
0
Update init from existing repo script
#111
ksilnoaa
opened
1 year ago
0
Qiime2 2023.5
#110
ksilnoaa
closed
1 year ago
0
Qiime2 2023.5
#109
ksilnoaa
closed
1 year ago
0
Merge pull request #107 from aomlomics/master
#108
ksilnoaa
closed
1 year ago
1
merge new wiki docs with qiime 2023.5
#107
ksilnoaa
closed
1 year ago
0
initial addition of wiki files to repo
#106
lukenoaa
closed
1 year ago
0
Add new version to docker hub
#105
ksilnoaa
closed
1 year ago
0
qiime not successfully installed (Linux)
#104
BCArg
closed
1 year ago
1
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