cmatKhan
Bioinformatics Scientist in Michael Brent's lab at Washington University, St Louis
Washington UniversitySt Louis, MO
Pinned Repositories
AhoCorasickDocumentation
Documentation for HW1
BSA
A collection of functions intended to facilitate bulk segregant analysis of cryptococcus neoformans strains associated with capsule formation
callingCardsTools
A collection of objects and functions to work with calling cards sequencing tools. See docs at https://cmatkhan.github.io/callingCardsTools
dragon_seg_fault_cneoformans
data to reproduce a segmentation fault in dragmap
llfsRnaseq
An R package which stores the code used to process Long Life Family Study RNA sequencing from fastq to analysis releases
PascalX
website
Code and files for the main nf-core website.
yeastregulatorydb
A Django app which defines a database and API to data related to yeast gene regulation
yeastregulatorydbstack
an aws cdk stack for rds/redis/django/celery apps
callingcards
A pipeline for processing calling cards data
cmatKhan's Repositories
cmatKhan/biomartr
Genomic Data Retrieval with R
cmatKhan/bootstrap-npm-template
bootstrap-v4.0 package template
cmatKhan/bpnet
Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them
cmatKhan/brentlabPythonUtils
A collection of python utilities, and an environment, useful in the brentlab
cmatKhan/brentlabRnaSeqTools
cmatKhan/build-react-pagination-demo
The source code for demo on how to build custom pagination component in a React application.
cmatKhan/extract_dissimilar_transcripts
Extract dissimilar transcripts between reference transcriptome and new(different/other) transcriptomes
cmatKhan/extract_geo_txfactor
extract human and mouse tx factor datasets from ncbi geo
cmatKhan/flo
Same species annotation lift over pipeline.
cmatKhan/miniconda
cmatKhan/misc_scripts
a collection of misc scripts. Ideally, these get categorized at some point
cmatKhan/nf-core-rw
cmatKhan/parabam
parabam
cmatKhan/pythonDemo
capitalize
cmatKhan/RNA-kinship
Scripts used for assessment of kinship detection using RNA-seq data.
cmatKhan/rnaseq_databases_documentation
Documentation for all organisms with active databases
cmatKhan/rnaseq_pipeline_rewrite
cmatKhan/yeast_database
yeast_database initial qc and a first pass version of the qc explorer