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Search results for python variants

25 search results found

Fantasque Sans ⭐ 6,134

A font family with a great monospaced variant for programmers.

Deepvariant ⭐ 2,978

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.

A low profile split keyboard designed to satisfy one single use case elegantly

Python Elgato Streamdeck ⭐ 778

Python library to control the Elgato Stream Deck.

Moonlight Vscode Theme ⭐ 632

A VS Code theme with bubblegum colors on a moonlit background

Django Lfs ⭐ 605

An online-shop based on Django

Next_word_prediction ⭐ 562

Using transformers to predict next word and predict <mask> word

Ssds.pytorch ⭐ 550

Repository for Single Shot MultiBox Detector and its variants, implemented with pytorch, python3.

Samplot ⭐ 458

Plot structural variant signals from many BAMs and CRAMs

Copy number variant detection from targeted DNA sequencing

Youtube Livestream Botter ⭐ 366

Simple tool to bot viewers to a YouTube Livestream!

High-level batteries-included neural network training library for Pytorch

Mannequinchallenge ⭐ 360

Inference code and trained models for "Learning the Depths of Moving People by Watching Frozen People."

Sequence correction provided by ONT Research

Configurable BoM generation tool for KiCad EDA (http://kicad.org/)

Covariants ⭐ 310

Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.

Igv Reports ⭐ 298

Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.

Whatshap ⭐ 290

Read-based phasing of genomic variants, also called haplotype assembly

Linear Attention Transformer ⭐ 278

Transformer based on a variant of attention that is linear complexity in respect to sequence length

a lightweight db framework for exploring genetic variation.

Dnaplotlib ⭐ 238

DNA plotting library for Python

Stacked Generative Adversarial Networks

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

Crazyara ⭐ 217

A Deep Learning UCI-Chess Variant Engine written in C++ & Python 🦜

PEPPER-Margin-DeepVariant

Pychess Variants ⭐ 214

Chess variant server

Ga4gh Schemas ⭐ 213

Models and APIs for Genomic data. RETIRED 2018-01-24

Spliceai ⭐ 184

A deep learning-based tool to identify splice variants

Megalodon ⭐ 172

Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.

Softmax_variants ⭐ 165

PyTorch code for softmax variants: center loss, cosface loss, large-margin gaussian mixture, COCOLoss, ring loss

Clairvoyante ⭐ 142

Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing

HGVS variant name parsing and generation

Dna Seq Gatk Variant Calling ⭐ 138

This Snakemake pipeline implements the GATK best-practices workflow

Souporcell ⭐ 134

Clustering scRNAseq by genotypes

A tool to build a website to browse hundreds or thousands of GWAS.

Intervar ⭐ 121

A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline

Opennir ⭐ 118

An end-to-end neural ad-hoc ranking pipeline.

Gcp Variant Transforms ⭐ 114

GCP Variant Transforms

Clinvar ⭐ 108

This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file.

Odoo Product Configurator ⭐ 108

Odoo modules enabling dynamic product configuration

Vcf Kit ⭐ 107

VCF-kit: Assorted utilities for the variant call format

Graph 2 Text ⭐ 107

Graph to sequence implemented in Pytorch combining Graph convolutional networks and opennmt-py

Tcnactionrecognition ⭐ 106

Skeleton based action recognition models with TCN variants for learning interpretable representation.

Encoded ⭐ 106

Metadata database for ENCODE project

Introtohadoopandmr__udacity_course ⭐ 103

🐘 Source code for assignments of Udacity course "Introduction to Hadoop and MapReduce"

Open Cravat ⭐ 98

A modular annotation tool for genomic variants

Thermonet ⭐ 95

ThermoNet is a computational method for quantitative prediction of the impact of single-point mutations on protein thermodynamic stability. The core algorithm of ThermoNet is an ensemble of deep 3D convolutional neural networks.

Ga4gh Server ⭐ 95

Reference implementation of the APIs defined in ga4gh-schemas. RETIRED 2018-01-24

A pure Python Levenshtein implementation that's not freaking GPL'd.

Ngs Pipe ⭐ 87

NGS-pipe: next-generation sequencing pipelines for precision oncology

Pipeline Structural Variation ⭐ 87

Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data

pbsv - PacBio structural variant (SV) calling and analysis tools

A python framework for solving the VRP and its variants with column generation.

Bigquery Examples ⭐ 85

Advanced BigQuery examples on genomic data.

Platypus ⭐ 85

Platypus Variant Caller

Structural Variant Identification Method using Long Reads

Myvariant.info ⭐ 84

MyVariant.info: A BioThings API for human variant annotations

Parliament2 ⭐ 83

Runs a combination of tools to generate structural variant calls on whole-genome sequencing data

User Sync.py ⭐ 83

Application for synchronizing Adobe customer directories via the User Management API

Tbprofiler ⭐ 81

Profiling tool for Mycobacterium tuberculosis to detect ressistance and strain type from WGS data

Tools for processing and analyzing structural variants.

Tiledb Vcf ⭐ 79

Efficient variant-call data storage and retrieval library using the TileDB storage library.

Phylowgs ⭐ 78

Application for inferring subclonal composition and evolution from whole-genome sequencing data.

Nanocaller ⭐ 78

Variant calling tool for long-read sequencing data

Bayesian genotyper for structural variants

Dna Seq Varlociraptor ⭐ 76

A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of Varlociraptor.

Unleash Client Python ⭐ 76

Unleash client SDK for Python 💡💡💡

Garamond Math ⭐ 75

An OTF math font matching the EB Garamond.

Princess ⭐ 74

Clair: Exploring the limit of using deep neural network on pileup data for germline variant calling

Characterization of Germline variants

Tensorswarm ⭐ 69

TensorSwarm: A framework for reinforcement learning of robot swarms.

Ssds_pytorch ⭐ 68

Multiple basenet MobileNet v1,v2, ResNet combined with SSD detection method and it's variants such as RFB, FSSD etc.

Phased assembly variant caller

Gtk Theme Variant Switcher ⭐ 65

A small service which forces certain windows to use a specific gtk theme variant. E.g. force dark window borders.

Windows variant of pexpect.

Read visualizer for structural variants

Nowar Sans ⭐ 58

Font packs for World of Warcraft and WoW Classic, moderate in size but excellent in Unicode coverage.

Cerbero build system used to build the official upstream GStreamer 1.0 SDK binaries

De novo Extraction of Strains from MetAgeNomes

Transcriptclean ⭐ 57

Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome

SG⁺⁺ – the numerical library for Sparse Grids in all their variants.

An awk-like VCF parser

A PyTorch implementation of VGG16. This could be considered as a variant of the original VGG16 since BN layers are added after each conv. layer

Django Ftl ⭐ 51

Django bindings for 'fluent', a modern internationalization (i18n) and localization (l10n) solution

Gtkdarkthemevariantsetter ⭐ 51

Make Sublime Text use the dark GTK+ theme variant (NO LONGER MAINTAINED)

Cadd Scripts ⭐ 50

CADD scripts release for offline scoring. For more information about CADD, please visit our website

Vembrane ⭐ 50

vembrane filters VCF records using python expressions

Variants ⭐ 50

Library providing syntactic sugar for creating variant forms of a canonical function

Vnetfamily ⭐ 49

Variant VNet family

Implementation of Restricted Boltzmann Machine (RBM) and its variants in Tensorflow

Vcfstats ⭐ 48

Powerful statistics for VCF files

Svim Asm ⭐ 48

Structural Variant Identification Method using Genome Assemblies

Wholecellecolirelease ⭐ 47

Release of the whole cell E. coli model.

for visual evaluation of read support for structural variation

Structural variant caller

Mtoolbox ⭐ 44

A bioinformatics pipeline to analyze mtDNA from NGS data

Generic human DNA variant annotation pipeline

The MAGICAL benchmark suite for robust imitation learning (NeurIPS 2020)

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