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Issues: SATAY-LL/LaanLab-SATAY-DataAnalysis

22 Open 20 Closed
22 Open 20 Closed
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Issues list

Troubleshooting of the pipeline documentation Improvements or additions to documentation
#45 opened Apr 20, 2021 by leilaicruz
@leilaicruz
Clean up master branch
#44 opened Mar 23, 2021 by Gregory94
@Gregory94
1
Documentation documentation Improvements or additions to documentation
#43 opened Mar 22, 2021 by Gregory94
@Gregory94
Gene name aliases
#37 opened Mar 11, 2021 by Gregory94
1
Fitness models out of SATAY data
#36 opened Mar 9, 2021 by leilaicruz
@leilaicruz @Wteunisse @FloorDolsma
1
Volcano plot for showing significant changes in reads per gene data exploration
#35 opened Feb 23, 2021 by Gregory94
@Gregory94
7
SATAY Data sequencing of WT and dnrp1 strains thanks to Agnes Michel (from Benoit lab, Oxford) data exploration data processing
#34 opened Feb 17, 2021 by leilaicruz
@leilaicruz
1
Issues regarding processing_workflow.sh
#33 opened Feb 1, 2021 by Gregory94
@Gregory94
Implement Unit testing as part of the pipeline workflow software_feature
#32 opened Dec 7, 2020 by leilaicruz
@leilaicruz @Gregory94
1
Trying/exploring the features from Transit: a Python software to analyse transposon sequencing dataset in bacteria data exploration software_feature
#31 opened Dec 7, 2020 by leilaicruz
@leilaicruz @Gregory94
1
Interpretation of sequencing data obtained from NovoGene sequencing data processing
#30 opened Nov 23, 2020 by EKingma
@Gregory94 @EKingma
18
Preprocessing workflow issues and comments data processing
#29 opened Oct 22, 2020 by Gregory94
@Gregory94
2
How to optimize the population fitness step during a SATAY experiment depending on what we want to know from it? Experimental variables
#28 opened Oct 16, 2020 by Wteunisse
@leilaicruz @Wteunisse
@EKingma @T-Wisse
3
How to interpret SATAY data in order to have meaningful information from it? data processing
#27 opened Oct 16, 2020 by Wteunisse
@leilaicruz @Wteunisse
@Gregory94 @T-Wisse
10
Combine information regarding reads, insertions and genomic features from different sources in one variable for easier access. data processing
#26 opened Oct 12, 2020 by Gregory94
@Gregory94
1
Different ways of computing the fitness of an ORF from the normalized reads data processing help wanted Extra attention is needed
#25 opened Oct 9, 2020 by leilaicruz
@leilaicruz
13
Drawing a correlation based network from fitness scores to interaction maps data exploration data processing
#23 opened Sep 22, 2020 by leilaicruz
@leilaicruz
1
Normalization approaches to take meaningul values of reads per transposon insertion throughout the chromosomes data exploration data processing
#21 opened Sep 3, 2020 by Gregory94
@Wteunisse @Gregory94
11
Using regression to estimate the probabilities for each gene to be essential or not given the SATAY data data processing
#20 opened Aug 19, 2020 by leilaicruz
@leilaicruz
1
From SATAY data to the prediction of the interaction map enhancement New feature or request
#18 opened Jul 23, 2020 by leilaicruz
@leilaicruz
6
Machine learning algorithms to estimate the number of reads for each transposon insertion data processing
#15 opened Jul 8, 2020 by leilaicruz
@leilaicruz @Wteunisse
Create some visualization or quantitative analysis for comparing two datasets with each other. data exploration
#10 opened May 8, 2020 by Gregory94
@leilaicruz @Gregory94 @EKingma
1
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