Redmine

02/14/2020

01:14 PM M. smegmatis variant calling pipeline Support #113: QC of files

After the pipeline was set up, the initial runs failed, and upon inspection of the fastq files it appears that they a... Jon Ambler

01:09 PM M. smegmatis variant calling pipeline Support #113 (New): QC of files

Running the fastq files through QC to determine if the quality is acceptable.
Using MultiQC pipeline Jon Ambler

01:12 PM M. smegmatis variant calling pipeline Support #114 (In Progress): Preparation of the reusable pipeline

The group requested that the pipeline be reusable.
For this, I am modifying existing Nextflow pipelines to provide... Jon Ambler

01:08 PM M. smegmatis variant calling pipeline Support #107 (Closed): Downloading data from GenoHub

Data moved to Ilifu
Location /cbio/users/jambler/mel_msmeg_data Jon Ambler

02/12/2020

11:40 AM MTB CRISPRi-seq Meeting with Mandy to discuss data transfer and analyses

I helped Mandy to download her data (SFTP .fastq files from public site at Crick). Some of the files are controls (~5... Katie Lennard

01/31/2020

02:30 PM Transcriptomic analysis of CNS TB Assessment of results produced by collaborator

After careful assessment of the fairly comprehensive results provided by the collaborators (all done in R), which inc... Katie Lennard

01/29/2020

12:21 PM M. smegmatis variant calling pipeline Support #107 (In Progress): Downloading data from GenoHub

Jon Ambler

11:19 AM M. smegmatis variant calling pipeline Support #107 (Closed): Downloading data from GenoHub

Data to be downloaded from GenoHub and moved onto Ilifu for processing.
Jon Ambler

01/28/2020

04:08 PM M. smegmatis variant calling pipeline Raphela_Lucas_CBIO_bioinformatics_support.docx

Support request form Jon Ambler

01/22/2020

04:00 PM MTB CRISPRi-seq Meeting with Mandy

Mandy currently analyses her CRIPRi-seq experiments with MAGecK-VISPR, but could not get the visualization component ... Katie Lennard