SATAY-LL LaanLab-SATAY-DataAnalysis issues

SATAY-LL / LaanLab-SATAY-DataAnalysis

This contains codes and workflows for data analysis regarding SATAY experiments.

Apache License 2.0

4 stars 3 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

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 3 years ago
11
Using regression to estimate the probabilities for each gene to be essential or not given the SATAY data

#20 leilaicruz opened 3 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 3 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