tahashmi

tahashmi's Stars

• BrunoLevy/learn-fpga

  Learning FPGA, yosys, nextpnr, and RISC-V

  Language:C++2.6k8675249

• doonny/PipeCNN

  An OpenCL-based FPGA Accelerator for Convolutional Neural Networks

  Language:C1.3k73176371

• igvteam/igv.js

  Embeddable genomic visualization component based on the Integrative Genomics Viewer

  Language:HTML654341.2k231

• jofrfu/tinyTPU

  Implementation of a Tensor Processing Unit for embedded systems and the IoT.

  Language:VHDL408235262

• fritzsedlazeck/SURVIVOR

  Toolset for SV simulation, comparison and filtering

  Language:C++3661221446

• rrwick/Basecalling-comparison

  A comparison of different Oxford Nanopore basecallers

  Language:Python315502254

• hammerlab/pileup.js

  Interactive in-browser track viewer

  Language:JavaScript2802026363

• a-slide/pycoQC

  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies basecaller (Albacore/Guppy)

  Language:Python27359941

• kharchenkolab/numbat

  Haplotype-aware CNV analysis from single-cell RNA-seq

  Language:R174919323

• virajbdeshpande/AmpliconArchitect

  AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and elucidates the architecture of the amplicon. In the current version, AA takes as input next generation sequencing reads (paired-end Illumina reads) mapped to the hg19/GRCh37 reference sequence and one or more regions of interest. Please "watch" this repository for improvements in runtime, accuracy and annotations for GRCh38 human reference genome coming up soon.

  Language:Python1391111043

• asl/BandageNG

  a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

  Language:C++117129710

• KarchinLab/open-cravat

  A modular annotation tool for genomic variants

  Language:JavaScript1162122328

• parklab/bamsnap

  Language:HTML11692925

• tobiasrausch/wally

  Wally: Visualization of aligned sequencing reads and contigs

  Language:C++1103126

• TimD1/vcfdist

  vcfdist: Accurately benchmarking phased variant calls

  Language:C++796337

• AmpliconSuite/AmpliconSuite-pipeline

  A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior to running AmpliconArchitect. Previously called PrepareAA.

  Language:Python6165928

• ccagc/QDNAseq

  QDNAseq package for Bioconductor

  Language:R49810428

• polarfire-soc/meta-polarfire-soc-yocto-bsp

  PolarFire SoC yocto Board Support Package

  Language:BitBake49343538

• treangenlab/methphaser

  MethPhaser: methylation-based haplotype phasing of human genomes

  Language:Python433171

• KolmogorovLab/Wakhan

  Haplotype-specific somatic copy number aberrations/profiling from long reads sequencing data

  Language:Python32260

• polarfire-soc/polarfire-soc-bare-metal-examples

  Bare metal example software projects for PolarFire SoC

  Language:C29221215

• tprodanov/parascopy

  Copy number estimation and variant calling for duplicated genes using WGS.

  Language:Python276164

• SUwonglab/arcsv

  Complex structural variant detection from WGS data

  Language:Python264108

• etal/cnvkit-examples

  Example datasets for CNVkit (http://github.com/etal/cnvkit)

  Language:Python21465

• mccoy-lab/t2t-variants

  Code associated with the manuscript "A complete reference genome improves analysis of human genetic variation".

  Language:R17123

• mmattioli/hardware-sort

  Hardware-accelerated sorting algorithm

  Language:VHDL16105

• rhasanbd/Gaussian-Mixture-Model-Powerful-Tool-for-Clustering-Anomaly-Detection-Data-Generation

  Language:Jupyter Notebook11201

• redndgreen8/hmcnc

  Hidden Markov Model based Copy number caller

  Language:Python5061

• etal/cnvkit-dnanexus

  DNAnexus app for CNVkit

  Language:Python32164

• FOUNDINPD/HiC_Pipelines

  Pipelines for processing HiC data

  Language:HTML32