Redmine

06/24/2019

04:42 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 5.00 hours (Support #92 (Resolved): Differential expression analysis)

Creating the design_formula file needed to create DESeqDataSet Jon Ambler

04:40 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 6.00 hours (Support #92 (Resolved): Differential expression analysis)

Sample gene counts need to be merged Jon Ambler

06/19/2019

12:53 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 1.00 hour (Support #81 (Resolved): Full run on ilifu of RNA seq pipeline)

Jon Ambler

06/18/2019

02:27 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 2.00 hours (Support #90 (Resolved): QC of aligned reads)

Initial overview Jon Ambler

11:32 AM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 8.00 hours (Support #81 (Resolved): Full run on ilifu of RNA seq pipeline)

Multiple parameters had to be changed with the genebody_coverage process taking a long time to run. Jon Ambler

06/10/2019

03:07 PM Pathogen outbreak study - Pseudomonas single isolate WGS 104.00 hours (Project: Pathogen outbreak study - Pseudomonas single isolate WGS)

Up until 31/5/2019 Katie Lennard

06/05/2019

10:17 AM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 2.00 hours (Support #86 (Resolved): Analyze keloid proteomics data with mqmetaproteomics pipeline on ilifu)

Failing unit tests for mqmetaproteomics fixed Thys Potgieter

06/04/2019

05:54 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 3.00 hours (Support #86 (Resolved): Analyze keloid proteomics data with mqmetaproteomics pipeline on ilifu)

Modifications to docker container so that it will run with singularity, git README added: https://github.com/uct-cbio... Thys Potgieter

06/01/2019

02:13 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 1.00 hour (Support #86 (Resolved): Analyze keloid proteomics data with mqmetaproteomics pipeline on ilifu)

docker container pushed to https://cloud.docker.com/repository/docker/thyscbio/mqmetaproteomics, interpro data downlo... Thys Potgieter

05/31/2019

11:10 AM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) 1.00 hour (Support #85 (Resolved): MaxQuant run of raw proteomics data)

MaxQuant run configured and started Thys Potgieter