arun-sub

arun-sub's Stars

• federico-busato/Modern-CPP-Programming

  Modern C++ Programming Course (C++03/11/14/17/20/23/26)

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• lh3/minimap2

  A versatile pairwise aligner for genomic and spliced nucleotide sequences

  Language:C1.8k861.1k421

• bwa-mem2/bwa-mem2

  The next version of bwa-mem

  Language:C++72736214102

• amplab/snap

  Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data

  Language:C++2884613466

• marbl/Winnowmap

  Long read / genome alignment software

  Language:C265154723

• lbcb-sci/raven

  De novo genome assembler for long uncorrected reads

  Language:C++211106621

• smarco/WFA-paper

  Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment

  Language:C200142716

• waveygang/wfmash

  base-accurate DNA sequence alignments using WFA and mashmap3

  Language:C++17796720

• Illumina/DRAGMAP

  DRAGEN open-source mapper

  Language:C++164195733

• Intel-HLS/GKL

  Accelerated kernel library for genomics

  Language:C103285641

• aman-goel/avr

  Reads a state transition system and performs property checking

  Language:C++764919

• manuels/cxx2rs

  A rust-binding generator for C files

  Language:Python51963

• fedorova/pm

  Benchmarks for persistent memory systems

  Language:C43304

• mlin/iitii

  Implicit Interval Tree with Interpolation Index

  Language:Jupyter Notebook41754

• ParBLiSS/PaSGAL

  Parallel Sequence to Graph Alignment

  Language:C++35654

• haowenz/sigmap

  A streaming method for mapping nanopore raw signals

  Language:C++311148

• adlape95/Assembly-methods-nanopore

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

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• CMUAbstract/POPT-CacheSim-HPCA21

  Language:C++18337

• TimD1/nPoRe

  nPoRe: n-Polymer Realigner for improved pileup-based variant calling

  Language:Python18140

• piyuranjan/SNIKT

  Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bioinformatics/btac389

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• IntelLabs/Trans-Omics-Acceleration-Library

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• wejlab/TBSignatureProfiler

  Profile RNA-seq data using published TB gene signatures

  Language:R123612

• DeRisi-Lab/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

  Language:Jupyter Notebook10412

• harvard-acc/RecPipe

  Language:Python10306

• TimD1/SquiggleFilter

  Hardware accelerator for real-time ReadUntil filtering of nanopore sequencing squiggles.

  Language:Python9310

• hasindu2008/libabea

  Adaptive Banded Event Alignment

  Language:C7300

• jackwadden/lamprey

  A Loop-Mediated Isothermal Amplification (LAMP) concatemer analysis, variant calling, and polishing tool

  Language:Python6301

• wevanjohnson/tbsp_malnutrition

  Data, code, and figures for the TB Signature Profiler on malnutrition paper

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• jackwadden/UltraRapidSeq

  This repository is meant to accompany the paper "Ultra-rapid Sequencing-based Molecular Diagnostics via Real-Time Threshold Sequencing." It is a collection of scripts used to perform certain analysis from the paper, and shared for reproducibility.

  Language:Python1301

• wejlab/curatedTBData

  Curation of existing TB gene expression datasets

  Language:R1423