Redmine

05/11/2023

04:27 PM Variant calling: detecting SNPs in WGS data relative to H37Rv Bug #156 (New): Debugging the bacterial variant calling pipeline

Building the docker image from a dockerfile
- Changing of the Ubuntu distribution
- installing unzip, wget rena... Ephie Geza

03:34 PM The impact of aSTI on the foreskin: spatial transcriptome and ex vivo HIV-1 infection Support #155 (New): Cell type identification (manual) and annotation

Use markers showing differential expression in each cluster to identify the cell types of each cluster Ephie Geza

03:16 PM The impact of aSTI on the foreskin: spatial transcriptome and ex vivo HIV-1 infection Support #154 (New): Gene expression levels

To compile the genes and their expression levels. Rowsums of the expression data Ephie Geza

02:59 PM The impact of aSTI on the foreskin: spatial transcriptome and ex vivo HIV-1 infection Support #153 (New): Data exploration

1. Data pre-processing
1. Data normalization and scaling
1. Dimension reduction and clustering Ephie Geza

02:50 PM The impact of aSTI on the foreskin: spatial transcriptome and ex vivo HIV-1 infection Support #152: Understanding the Slide seq data and analysis pipelines

1. Started by investigating the ssHippo data from the SeuratData package in R
- the data
- the code upto the crea... Ephie Geza

12:34 PM The impact of aSTI on the foreskin: spatial transcriptome and ex vivo HIV-1 infection Support #152 (New): Understanding the Slide seq data and analysis pipelines

This is to clarify whether single-cell RNA for the skin should be done or we use it as reference for slide seq analysis. Ephie Geza

05/04/2023

11:51 AM The impact of aSTI on the foreskin: spatial transcriptome and ex vivo HIV-1 infection Support #149 (New): Adding Nyaradzo Chigorimbo-Tsikiwa on Redmine

Hi Gerrit,
Kindly add Nyari on Redmine for **The impact of aSTI on the foreskin: spatial transcriptome and ex vivo... Ephie Geza