sanjaynagi
studying malaria mosquito population genomics at the Liverpool School of Tropical Medicine.
Liverpool School of Tropical MedicineLiverpool, UK
Pinned Repositories
selection-atlas
Here be dragons.
malariagen-data-python
Analyse MalariaGEN data from Python
ag3-ibd
ag3-relatedness
AmpSeeker
A snakemake workflow for amplicon sequencing
AnoExpress
Anopheles gene expression in insecticide resistance studies
AnoPrimer
Primer Design in Anopheles gambiae and funestus considering genetic variation
PhD_thesis_code
Jupyter notebooks for thesis analyses not contained in other repositories/workflows
rna-seq-pop
Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
sanjinho-site
Personal website and blog, based on amanhimself.dev 🙏
sanjaynagi's Repositories
sanjaynagi/rna-seq-pop
Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
sanjaynagi/AnoExpress
Anopheles gene expression in insecticide resistance studies
sanjaynagi/AnoPrimer
Primer Design in Anopheles gambiae and funestus considering genetic variation
sanjaynagi/PhD_thesis_code
Jupyter notebooks for thesis analyses not contained in other repositories/workflows
sanjaynagi/sanjinho-site
Personal website and blog, based on amanhimself.dev 🙏
sanjaynagi/ag3-ibd
sanjaynagi/ag3-relatedness
sanjaynagi/AmpSeeker
A snakemake workflow for amplicon sequencing
sanjaynagi/ancIBD
Detecting IBD within low coverage ancient DNA data. Development Repository for software package that contains code for manuscript.
sanjaynagi/anopheles-genomic-surveillance.github.io
Lecture notes for a course on genomic surveillance of malaria vectors, developed by PAMCA and MalariaGEN
sanjaynagi/autoresearcher
⚡ Automating scientific workflows with AI ⚡
sanjaynagi/compkaryo
A python package for determining inversion genotype in Anopheles coluzzii and gambiae
sanjaynagi/impute-Ag
Attempting to impute and phase low coverage sequencing data in Anopheles
sanjaynagi/locusPocus
sanjaynagi/malariagen-data-python
A Python package providing functions for accessing and analysing MalariaGEN data.
sanjaynagi/Ne_Ag
Repo for analyses of effective population size of Anopheles gambiae
sanjaynagi/probe
sanjaynagi/sanjaynagi.github.io
Personal website and blog
sanjaynagi/coeaexf
Code for the coeaexf manuscript
sanjaynagi/diplotype-clustering
sanjaynagi/malaria-vector-software-ecosystem
sanjaynagi/personal-site
My personal website - built with React, React-Router, React-Snap for Static-Export, and GitHub Pages.
sanjaynagi/phasedibd
Identity-by-descent inference using the templated positional Burrows-Wheeler transform (TPBWT)
sanjaynagi/Relate_Ag
Repo for analyses into Ag1000g with Relate
sanjaynagi/sanjaynagi
sanjaynagi/scikit-allel
A Python package for exploring and analysing genetic variation data
sanjaynagi/sgkit
Statistical genetics toolkit
sanjaynagi/snakemake-gui
Snakemake-GUI is a graphical user interface (GUI) that can be used to run Snakemake workflows. It is essentially sequanix, without the sequana pipelines.
sanjaynagi/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
sanjaynagi/snklog