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ProtProtocols
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IsoProt
Protocol of the analysis of iTRAQ/TMT proteomics data including quantification, statistical analysis and maybe clustering
https://protprotocols.github.io
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Improve feedback on progress
#47
veitveit
closed
6 years ago
1
Set correct default experimental design for test case
#46
veitveit
closed
5 years ago
5
Add parameter for peptide inference
#45
veitveit
opened
6 years ago
7
Memory usage of PeptideShaker?
#44
veitveit
closed
5 years ago
4
Ability for calling web services (downstream)
#43
veitveit
opened
6 years ago
0
Simple option to download entire worksheet and/or figures
#42
veitveit
opened
6 years ago
2
Make different MS runs comparable
#41
veitveit
closed
5 years ago
5
create a run.bat
#40
gvinterhalter
closed
5 years ago
7
veitveit/isolabeledprotocol or label_pipeline
#39
gvinterhalter
closed
6 years ago
2
Scripts change working directory and break search
#38
jgriss
closed
6 years ago
4
Automatics mount of data and OUT folders
#37
veitveit
closed
6 years ago
8
Update configuration settings when changing the parameters
#36
veitveit
closed
6 years ago
4
Reset button
#35
veitveit
closed
5 years ago
2
Reorder widgets and disable in the right order
#34
veitveit
closed
6 years ago
3
Identify data sets for testing
#33
veitveit
closed
6 years ago
5
Allow more than 2 experimental conditions
#32
veitveit
closed
6 years ago
1
Regain original functionality
#31
veitveit
closed
6 years ago
5
Experimental design does not update on labelling method
#30
veitveit
closed
6 years ago
1
Set correct default parameter values
#29
veitveit
closed
6 years ago
1
Separate search and GUI functionality
#28
jgriss
closed
6 years ago
15
Add warning if multiple MGF files are found
#27
jgriss
closed
6 years ago
2
Evaluate methods for compositional analysis
#26
jgriss
opened
6 years ago
1
Separation of GUI, Data and Searching
#25
gvinterhalter
closed
6 years ago
10
Move Python search code to a separte python file
#24
jgriss
closed
6 years ago
0
Add auto methods section function
#23
jgriss
closed
5 years ago
3
Add checkbox for every variable PTM whether it should be included in the quantification
#22
jgriss
opened
6 years ago
0
Add extensive documentation/explanation of results and figures
#21
veitveit
closed
5 years ago
6
Set stage to run new analysis
#20
veitveit
closed
6 years ago
2
Substitute PeptideShaker processing by MSnbase functions?
#19
veitveit
closed
6 years ago
4
Widgets to set parameters for quantification and statistics
#18
veitveit
closed
6 years ago
4
Define or create useful example data
#17
veitveit
closed
6 years ago
1
Define and implement plots for QC and results
#16
veitveit
closed
6 years ago
1
Add Protein-level FDR filter
#15
jgriss
opened
6 years ago
3
Example.ipynb isn't trusted
#14
jgriss
closed
6 years ago
1
Add continuous integration tests for docker image
#13
jgriss
opened
6 years ago
1
Automatic R package installation fails (ie. isobar)
#12
jgriss
closed
6 years ago
0
Disable PeptideShaker's function to fetch annotations
#11
jgriss
closed
6 years ago
1
Add a license
#10
jgriss
closed
5 years ago
8
Use stable MSnbase version
#9
jgriss
closed
5 years ago
3
Save all configurations in a file
#8
jgriss
closed
6 years ago
0
Add a protein summarization function
#7
jgriss
closed
6 years ago
1
Add a protein inference function
#6
jgriss
closed
6 years ago
3
Evaluate TMTc
#5
jgriss
closed
6 years ago
1
Add possibility of samples that are arranged in different folders
#4
jgriss
closed
6 years ago
5
Control workflow through buttons
#3
jgriss
closed
6 years ago
0
MSnbase is not installed
#2
jgriss
closed
6 years ago
1
rebase on the dockerfile built at eubic2018
#1
ninewise
closed
6 years ago
0
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