jpfeil Goto Github PK

ancestry_pipeline

Provides helper scripts for inferring local ancestry, performing ancestry-specific PCA, etc

atom

The hackable text editor

awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

bamsurgeon

tools for adding mutations to existing .bam files, used for testing mutation callers

bd2k-summer-workshop

Teaching the fundamentals of bioinformatics and data science. BD2K Summer Workshop 2016

bios8366

Advanced Statistical Computing at Vanderbilt University's Department of Biostatistics

bme205_hw4

This is the description file for Kevin Karplus' BME205 class

bnpy

Bayesian nonparametric machine learning for Python

bowtie

An ultrafast memory-efficient short read aligner

bwa

Burrow-Wheeler Aligner for pairwise alignment between DNA sequences

cgcloud

Image and VM management for Jenkins, Spark and Mesos clusters in EC2

cgl-docker-lib

cmdstan

deuflix

diamond

Accelerated BLAST compatible local sequence aligner.

dilated-attention-pytorch

(Unofficial) Implementation of dilated attention from "LongNet: Scaling Transformers to 1,000,000,000 Tokens" (https://arxiv.org/abs/2307.02486)

dockerfiles

dockernator

This project contains my Dockerfiles for the tool used in the pimmuno project

dp_gp_cluster

fusion

fusion-1

fusionframefinder

fusioninspector

FusionInspector code

gatk-whole-genome-pipeline

End to end pipeline for calling variants against an entire genome

gbgfa

Gene-wise Prior Bayesian Group Factor Analysis Model

germline-validation

gpu-docker

hydra

hydra-paper

ib_insync

Python sync/async framework for Interactive Brokers API