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SATAY-LL
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LaanLab-SATAY-DataAnalysis
This contains codes and workflows for data analysis regarding SATAY experiments.
Apache License 2.0
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Docstring test mapping
#87
leilaicruz
closed
3 years ago
0
Docstring test importing
#84
leilaicruz
closed
3 years ago
0
adjusting imports for the notebook with the new folder structure
#83
leilaicruz
closed
3 years ago
0
Docker
#82
mwakok
closed
3 years ago
0
Reorganize directory structure
#77
mwakok
closed
3 years ago
0
Complete basic refactoring of transposonmapper
#76
mwakok
closed
3 years ago
0
Refactor transposonmapping
#75
mwakok
closed
3 years ago
0
exploring to export coverage reports upon pushing
#73
leilaicruz
closed
3 years ago
0
Tasks4tests
#72
leilaicruz
closed
3 years ago
0
Move the Jupyter Book repository to the satay-LL organization
#71
leilaicruz
closed
3 years ago
1
Test transposonmapper
#70
leilaicruz
closed
3 years ago
4
Tasks4tests
#69
leilaicruz
closed
3 years ago
0
Make use of issue templates, for bug reports ad feature improvement of the code base
#68
leilaicruz
closed
3 years ago
0
Update issue templates
#67
leilaicruz
closed
3 years ago
0
Update issue templates
#66
leilaicruz
closed
3 years ago
0
Feature/reorganize code
#64
mwakok
closed
3 years ago
0
Create CI_test.yml
#63
mwakok
closed
3 years ago
0
Feature/manage dependencies
#60
mwakok
closed
3 years ago
0
Why are .pyc files inside the Python_scripts folder?
#58
leilaicruz
closed
3 years ago
1
Troubleshooting of the pipeline
#45
leilaicruz
opened
3 years ago
0
Clean up master branch
#44
Gregory94
opened
3 years ago
1
Documentation
#43
Gregory94
opened
3 years ago
0
Bump jinja2 from 2.11.2 to 2.11.3
#42
dependabot[bot]
closed
3 years ago
0
Bump urllib3 from 1.26.2 to 1.26.3
#41
dependabot[bot]
closed
3 years ago
0
Bump pillow from 8.1.0 to 8.1.1
#40
dependabot[bot]
closed
3 years ago
0
Adding a GNU General Public License
#39
leilaicruz
closed
3 years ago
2
Bump bleach from 3.2.1 to 3.3.0
#38
dependabot[bot]
closed
3 years ago
0
Gene name aliases
#37
Gregory94
opened
3 years ago
1
Fitness models out of SATAY data
#36
leilaicruz
opened
3 years ago
1
Volcano plot for showing significant changes in reads per gene
#35
Gregory94
opened
3 years ago
7
SATAY Data sequencing of WT and dnrp1 strains thanks to Agnes Michel (from Benoit lab, Oxford)
#34
leilaicruz
opened
3 years ago
1
Issues regarding processing_workflow.sh
#33
Gregory94
opened
3 years ago
0
Implement Unit testing as part of the pipeline workflow
#32
leilaicruz
opened
3 years ago
1
Trying/exploring the features from Transit: a Python software to analyse transposon sequencing dataset in bacteria
#31
leilaicruz
opened
3 years ago
1
Interpretation of sequencing data obtained from NovoGene
#30
EKingma
opened
3 years ago
18
Preprocessing workflow issues and comments
#29
Gregory94
opened
3 years ago
2
How to optimize the population fitness step during a SATAY experiment depending on what we want to know from it?
#28
Wteunisse
opened
3 years ago
3
How to interpret SATAY data in order to have meaningful information from it?
#27
Wteunisse
opened
3 years ago
10
Combine information regarding reads, insertions and genomic features from different sources in one variable for easier access.
#26
Gregory94
opened
3 years ago
1
Different ways of computing the fitness of an ORF from the normalized reads
#25
leilaicruz
opened
3 years ago
13
Networks based on..
#24
leilaicruz
closed
3 years ago
0
Drawing a correlation based network from fitness scores to interaction maps
#23
leilaicruz
opened
3 years ago
1
Reference sequence: W303 vs S288C ?
#22
Gregory94
closed
3 years ago
0
Normalization approaches to take meaningul values of reads per transposon insertion throughout the chromosomes
#21
Gregory94
opened
4 years ago
11
Using regression to estimate the probabilities for each gene to be essential or not given the SATAY data
#20
leilaicruz
opened
4 years ago
1
Test geneSCF software for retrieving GO-terms.
#19
Gregory94
closed
3 years ago
1
From SATAY data to the prediction of the interaction map
#18
leilaicruz
opened
4 years ago
6
Another bug in Benoit Matlab code
#17
Gregory94
closed
3 years ago
4
Transposon numbers mitochondrial DNA, MISTAKE IN BENOIT MATLAB CODE
#16
leilaicruz
closed
3 years ago
3
Machine learning algorithms to estimate the number of reads for each transposon insertion
#15
leilaicruz
opened
4 years ago
0
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