roysomak4

ngs_bio_workshop

Instructions and scripts for NGS bioinformatics hands on workshop

cnaplotr

Python package for generating copy number alteration (CNA) plots

BCOR_ITD_ext

BCOR-ITD script modified from FLT3_ITD_ext

clinvar-preprocess

Preprocess ClinVar database for integration into custom variant annotation solution

cosmic-preprocess

Script to process cosmic VCF and Mutant export data to generate tumor site counts per variant

cosmic_db_download

utility to download COSMIC database files

docker-airflow

Docker Apache Airflow

elprep

elPrep: a high-performance tool for preparing sequence alignment/map files in sequencing pipelines.

FLT3_ITD_ext

FLT3-ITD script based on in-silico extension and clustering

gdrive_download_file

download file from google drive

roysomak4/cnaplotr

Python package for generating copy number alteration (CNA) plots

roysomak4/ngs_bio_workshop

Instructions and scripts for NGS bioinformatics hands on workshop

roysomak4/varbench

benchmarking tool for comparing DNA sequence variants

roysomak4/insiM

roysomak4/uta-docker

Dockerfile and instructions to build custom docker image for UTA

roysomak4/cosmic-preprocess

Script to process cosmic VCF and Mutant export data to generate tumor site counts per variant

roysomak4/gzstream

gzstream

roysomak4/itdseek

FLT3 ITD detection (ITDseek) and simulation (ITDsim)

roysomak4/FLT3_ITD_ext

FLT3-ITD script based on in-silico extension and clustering

roysomak4/uta

Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image

roysomak4/VarNomen

roysomak4/BCOR_ITD_ext

BCOR-ITD script modified from FLT3_ITD_ext

roysomak4/docker-airflow

Docker Apache Airflow

roysomak4/ss-cert

Shell script to generate self-signed certificates for a domain

roysomak4/grip-informatics

roysomak4/cosmic_db_download

utility to download COSMIC database files

roysomak4/sra-toolkit-docker

roysomak4/gdrive_download_file

download file from google drive

roysomak4/clinvar-preprocess

Preprocess ClinVar database for integration into custom variant annotation solution

roysomak4/elprep

elPrep: a high-performance tool for preparing sequence alignment/map files in sequencing pipelines.

roysomak4/portainer

Docker compose file for deploying portainer and agent services

roysomak4/new_shell_setup

scripts to setup shell environment

roysomak4/vim-setup

.vimrc and other useful stuff