Activity

From 05/31/2019 to 06/29/2019

01:02 PM Microbiota profiling of cows milk with and without traditional fermentation Meetin with Pieter and Mike to discuss analysis: Mainly they are looking for improved species-level resolution with a few specific species they are hoping to see. I w... Katie Lennard

05:21 PM The impact of fire and herbivores on soil microbes dada2 testrun on HPC successfull: Config files edited by user (on HPC copy of repo). https://github.com/kviljoen/16S-rDNA-dada2-pipeline/blob/master/co... Katie Lennard

04:42 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #92: Differential expression analysis: Including this into the first python script so merging and splitting by experiment into the required files takes plac... Jon Ambler
04:40 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #92: Differential expression analysis: Writing a script for this in python for repeatability. Jon Ambler
04:38 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #92 (Resolved): Differential expression analysis: Conduct differential expression analysis on the samples.
The experiments are outlined in the RNAseq_analysis_8_Ma... Jon Ambler

12:53 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #81 (Resolved): Full run on ilifu of RNA seq pipeline: The last 8 samples ran successfully, it was the max runtime that was an issue for the genebody_coverage process where... Jon Ambler

02:27 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #90 (In Progress): QC of aligned reads: The QC looks good, but there are a few samples with results that warrant further investigation. Some samples also had... Jon Ambler
11:34 AM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #90 (Resolved): QC of aligned reads: A QC report was generated by MultiQC. All samples need to be checked to make sure there were no problems and the data... Jon Ambler
11:32 AM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #81 (In Progress): Full run on ilifu of RNA seq pipeline: The full run completed, but 8 processed failed.The Nextflow report claims that the run was successful, despite the er... Jon Ambler

03:11 PM Pathogen outbreak study - Pseudomonas single isolate WGS CBIO_bioinformatics_support_request CM 28 Jan 2019.docx: CBIO support request Katie Lennard
03:01 PM Pathogen outbreak study - Pseudomonas single isolate WGS Updated results available for kSNP3 phylogenetic tree: The alignment.nf module was edited so that additional reference genomes could be added to the pipeline and used to ge... Katie Lennard

02:10 PM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #86 (Resolved): Analyze keloid proteomics data with mqmetaproteomics pipeline on ilifu: Metaproteomic analysis docker container pulled to ilifu and converted to singularity image, latest InterPro scan inst... Thys Potgieter

11:10 AM Identification of biomarkers in keloids and folliculitis keloidalis nuchae (FKN) Support #85 (Resolved): MaxQuant run of raw proteomics data: 98 RAW files processed with MaxQuant. Thys Potgieter

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