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/dragon_seg_fault_cneoformans
data to reproduce a segmentation fault in dragmap
cmatKhan/PascalX
cmatKhan/website
Code and files for the main nf-core website.
cmatKhan/BSA
A collection of functions intended to facilitate bulk segregant analysis of cryptococcus neoformans strains associated with capsule formation
cmatKhan/callingCardsTools
A collection of objects and functions to work with calling cards sequencing tools. See docs at https://cmatkhan.github.io/callingCardsTools
cmatKhan/isocomp
cmatKhan/llfsRnaseq
An R package which stores the code used to process Long Life Family Study RNA sequencing from fastq to analysis releases
cmatKhan/yeastregulatorydb
A Django app which defines a database and API to data related to yeast gene regulation
cmatKhan/yeastregulatorydbstack
an aws cdk stack for rds/redis/django/celery apps
cmatKhan/bioconda-recipes
Conda recipes for the bioconda channel.
cmatKhan/c8_kn99_transcriptome_eda
Comparing the stringtie results from C8 and KN99 RNAseq
cmatKhan/callingcards
A pipeline for processing calling cards data
cmatKhan/cmatKhan
profile customization
cmatKhan/Comparative-Annotation-Toolkit
cmatKhan/cookiecutter-django
Cookiecutter Django is a framework for jumpstarting production-ready Django projects quickly.
cmatKhan/corrmeta
R implementation of Correlated Meta-Analysis (CMA) by the Province Lab
cmatKhan/cse587Autils
A set of classes and functions to be used in CSE 587A
cmatKhan/docs
HTCF documentation
cmatKhan/labretriever
A simplified HTTP interface for lab-centric databases
cmatKhan/llfs_rnaseq_variants
scripts for exploring llfs rnaseq variant data
cmatKhan/nf_core_modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
cmatKhan/parsing_yeast_database_data
This project stores the data, scripts, citation and links which describe the source and transformations on externally produced data which is added to the yeast CallingCards database
cmatKhan/QTLseqr
QTLseqr is an R package for QTL mapping using NGS Bulk Segregant Analysis
cmatKhan/sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
cmatKhan/shinyngs
Shiny apps for NGS etc based on reusable components created using Shiny modules
cmatKhan/test-datasets
Test data to be used for automated testing with the nf-core pipelines
cmatKhan/yeastdnnexplorer
A development environment to explore implementations of deep neural networks for predicting the relationship between transcription factor and target genes using binding and perturbation data
cmatKhan/yeastEpigenomeScraper
Scrape the metadata from yeastepigenome.org
cmatKhan/yeastregulatorydbstack_deprecated
cmatKhan/ysp2Compare
code for suppressor analysis