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shuzhao-li-lab
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PythonCentricPipelineForMetabolomics
Python pipeline for metabolomics data preprocessing, QC, standardization and annotation
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ThermoRawFileConverter does not work on GC Data
#75
jmmitc06
closed
2 weeks ago
4
multi-core processing for map_ms2
#74
YasinEl
opened
1 month ago
1
asari cannot locate mzml files from assebled experiment
#73
YasinEl
opened
1 month ago
6
scipy dependency in matchms
#72
shuzhao-li
closed
1 month ago
1
Support all mQACC best practices during data processing.
#71
jmmitc06
opened
3 months ago
0
Mass differences for EI-MS variant of Khipu
#70
jmmitc06
opened
3 months ago
0
Mirror Plots for EI-MS / MS2
#69
jmmitc06
opened
3 months ago
0
Reset command example
#68
gmhhope
closed
4 months ago
2
TOC for Report
#67
jmmitc06
opened
4 months ago
0
Cross-device link" error when running assemble
#66
gmhhope
opened
5 months ago
2
Replace __extract__
#65
jmmitc06
closed
5 months ago
1
Enforce collision energy matching for MS2
#64
jmmitc06
opened
6 months ago
0
controlled vocabulary restriction for feature tables / empcpds
#63
jmmitc06
closed
1 month ago
2
Better description of PDF contents
#62
jmmitc06
closed
5 months ago
1
More detailed descriptions of the inputs and outputs
#61
jmmitc06
opened
6 months ago
0
DDA scan should be togglable
#60
jmmitc06
closed
6 months ago
1
Correlation heatmap tick marks
#59
jmmitc06
opened
6 months ago
0
Singletons are not annotated using L4 annotation methods.
#58
jmmitc06
closed
6 months ago
1
Anaconda version
#57
jmmitc06
closed
2 months ago
1
Start analysis without metadata
#56
jmmitc06
opened
6 months ago
0
Start analysis with exsiting table
#55
jmmitc06
opened
6 months ago
0
Better inferencing of missing metadata fields.
#54
jmmitc06
closed
1 month ago
5
Issue with figure generation when called multiple times
#53
jmmitc06
closed
6 months ago
1
Sequence file with empty field or nan won't be handle properly in JSON file.
#52
gmhhope
closed
6 months ago
11
metadata field for a quick look at the group/class... during pcpfm run
#51
gmhhope
closed
6 months ago
3
Signaling completion for each step while running the command lines
#50
gmhhope
closed
6 months ago
2
Run through but w/t errors that want to be clarified.
#49
gmhhope
closed
6 months ago
30
Enhanced Organization and Utility of Example Scripts
#48
gmhhope
closed
6 months ago
7
A central place (JSON file?) to provide comprehensive Field Mapping Guidelines for User-friendly understanding of the implied rule.
#47
gmhhope
closed
6 months ago
3
Harmonize output metadata
#46
jmmitc06
opened
6 months ago
0
Log transformation issue
#45
jmmitc06
closed
6 months ago
1
Replace Pycombat
#44
jmmitc06
opened
7 months ago
0
Add support for special metadata types
#43
jmmitc06
closed
5 months ago
2
Avoid "example" files under pcpfm
#42
shuzhao-li
closed
7 months ago
1
Unit testing / Validation testing
#41
jmmitc06
opened
10 months ago
0
Align annotations results with metdata model.
#40
jmmitc06
closed
7 months ago
1
Maybe we can introduce more about example bash scripts
#39
YuanyeChi
closed
8 months ago
2
Non-MSP file formats for Annotate
#38
jmmitc06
closed
10 months ago
1
Support for multiple MSP annotation source
#37
jmmitc06
closed
10 months ago
1
Add region support for manual integration
#36
jmmitc06
opened
10 months ago
0
Metadata support for non-orbis
#35
jmmitc06
opened
10 months ago
0
Support raw file formats directly
#34
jmmitc06
opened
10 months ago
0
QA/QC Figures for Rejected Samples
#33
jmmitc06
opened
10 months ago
0
Put on Anaconda
#32
jmmitc06
opened
10 months ago
0
MS2 Annotation is Slow
#31
jmmitc06
closed
11 months ago
1
Interrupting saving of experiment.json can cause corruption
#30
jmmitc06
closed
1 year ago
1
Coloring in Figures
#29
jmmitc06
closed
1 year ago
1
Handle missing files gracefully
#28
jmmitc06
closed
1 year ago
1
Generalize functionality
#27
jmmitc06
closed
8 months ago
1
Direct annotate empCpds
#26
jmmitc06
closed
11 months ago
1
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