arun-sub Goto Github PK

abpoa

abPOA: an SIMD-based C library for fast partial order alignment using adaptive band

academicpages.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

al-folio

A beautiful Jekyll theme for academics

assembly-methods-nanopore

Assembly methods for nanopore-based metagenomic sequencing: a comparative study

aws-fpga-app-notes

Application notes for the F1 EC2 Instance

basejump_stl

BaseJump STL: A Standard Template Library for SystemVerilog

bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

bonito

Convolutional Basecaller for Oxford Nanopore Reads

bwa

Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

bwa-mem-quickassist

bwa-mem2

Building upon BWA-MEM2, this repository includes performance improvements to the seeding and mate-rescue steps.

canu

A single molecule sequence assembler for genomes large and small.

coding-interview-university

A complete computer science study plan to become a software engineer.

debruijn

elprep

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

fastmac

fathom

Reference workloads for modern deep learning methods.

flye

De novo assembler for single molecule sequencing reads using repeat graphs

galaxy

Data intensive science for everyone.

gatk

Official code repository for GATK versions 4 and up

gatk-protected

Official code repository for GATK versions 1.0 through 3.7 (full licensed package). For GATK 4 code, see the https://github.com/broadinstitute/gatk repository

gem5-aladdin

End-to-end SoC simulation: integrating the gem5 system simulator with the Aladdin accelerator simulator.

genomeworks

SDK for GPU accelerated genome assembly and analysis

genomicsbench

A benchmark suite to study the performance characteristics of genomics applications

gkl

Accelerated kernel library for genomics

gwas-speedup

Code for GWAS logistic regression project

helen

H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)

home

my academic site and blog

host-microbelrti

Code required for analysis of Host and Microbe presented in: Integrating Host Response and Unbiased Microbe Detection for Lower Respiratory Tract Infection Diagnosis in Critically Ill Adults

htslib

C library for high-throughput sequencing data formats