---
# System prepended metadata

title: Ademola/Ruth Weekly Meetings from November 2022

---

# Ademola/Ruth Weekly Meetings from November 2022

## About the format:

### Copy the content below and provide an update

_What did you achieve last week?_

_Who did you help last week?_

_Who helped you last week?_

_What did you struggle with?_

_What would you like to work on this week?_

_Where do you need help?_

## 04th November 2022

**Ruth Nanjala**

_What did you achieve last week?_

- Optimizing a Nextflow pipeline for HLA typing
- Wrote a Nextflow pipeline for the GMS course NGS pipeline
- TAing for the NGS course

_Who did you help last week?_

- GMS MSc students

_Who helped you last week?_

- Yang (Supervisor)

_What did you struggle with?_

- Estimating HLA allele frequencies

_What would you like to work on this week?_

- Estimating HLA allele frequencies
- Estimating HLA allele diversity
- Meet with departmental DGS
- Weekly lab meeting and one-on-one meeting
- GMS statistical course - Bayesian Statistics

_Where do you need help?_
- Estimating HLA allele frequencies

**Ademola Ayeinuro**

_What did you achieve last week?_

_Who did you help last week?_

_Who helped you last week?_

_What did you struggle with?_

_What would you like to work on this week?_

- Quantify T Cells
- Finish up figures for manuscript

_Where do you need help?_


## 12th November 2022

**Ruth Nanjala**

_What did you achieve last week?_

- Estimated HLA allele frequencies
- Met with departmental DGS
- Weekly lab meeting and one-on-one meeting
- GMS statistical course - Bayesian Statistics


_Who did you help last week?_

- N/A

_Who helped you last week?_

- Yang (Supervisor)
- Esther
- Kevin

_What did you struggle with?_

- Estimating HLA allele diversity

_What would you like to work on this week?_

- Estimating HLA allele diversity
- GMS statistical course - Population genetics
- Do pop gen analysis 
- Weekly one-on-one meeting

_Where do you need help?_
- GWAS analysis

**Ademola Emmanuel**

_What did you achieve last week?_
- I improved my image analysis using a new software, hence would have to start analysing my images all over again

_Who did you help last week?_

_Who helped you last week?_

_What did you struggle with?_

_What would you like to work on this week?_

- Quantify T Cells
- Finish up figures for manuscript

_Where do you need help?_

## 19th November 20222
**Ruth Nanjala**

_What did you achieve last week?_ 
- GMS statistical course - Advanced GWAS
- Modifying HLA allele frequencies plots 
- Ploting allele coverage plots
- Weekly one-on-one meeting
- Reviewing AfriSoc mentorship applications
- Reviewing Rachel's & Rose applications

_What did you struggle with?_
- Plotting

_What would you like to work on this week?_
- Estimating HLA allele diversity
- Meet with the BMRC team
- Modifying allele frequency plots
- Weekly one-on-one meeting
- PCA analysis
- [ ]  genome-wide PCA
- [ ]  genome-wide PCA projected onto 1000 Genomes samples
- [ ]  IBD within samples
- [ ]  merge Gambian dataset and 1000G AFR samples and project them onto the same PC
- [ ]  PCA within MHC region


**Ademola Aiyenuro**

_What would you like to work on this week_
- Manuscript text-
- Improve the results section
- Manuscript figures
- Send off my samples for DDL typing


# 25th November 2022
**Ruth Nanjala**

_What did you achieve last week?_ 
- Estimating HLA allele diversity
- Meet with the BMRC team
- Modifying allele frequency plots
- Weekly one-on-one meeting

_What did you struggle with?_
- IBD computation using plink

_What would you like to work on this week?_
- Project progress presentation
- GMS course - Machine learning & Statistical models for polygenic traits
- Redo frequency plots
- Design PCA plots
Count the number of immune cells in a cancer infected cell








