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WillJackson94's starred repositories

faceswap

Deepfakes Software For All

Language:PythonGPL-3.049961 1526 856

xgboost

Scalable, Portable and Distributed Gradient Boosting (GBDT, GBRT or GBM) Library, for Python, R, Java, Scala, C++ and more. Runs on single machine, Hadoop, Spark, Dask, Flink and DataFlow

Language:C++Apache-2.025846 912 5226

neural-networks-and-deep-learning

Code samples for my book "Neural Networks and Deep Learning"

Language:Python15730 10950

deepvariant

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

Language:PythonBSD-3-Clause3133 160 790

PyTables

A Python package to manage extremely large amounts of data

Language:PythonBSD-3-Clause1294 63 726

bedtools2

bedtools - the swiss army knife for genome arithmetic

Language:CMIT918 58 826

ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

Language:R821 37 490

FIt-SNE

Fast Fourier Transform-accelerated Interpolation-based t-SNE (FIt-SNE)

Language:C++NOASSERTION585 36 75

cbioportal

cBioPortal for Cancer Genomics

Language:JavaAGPL-3.0581 52 6032

ensembl-vep

The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants

Language:PerlApache-2.0442 32 1065

seqan3

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

Language:C++NOASSERTION396 26 766

manta

Structural variant and indel caller for mapped sequencing data

Language:C++GPL-3.0391 40 302

pagoda2

R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets

Language:JavaScript198 18 113

cellassign

Automated, probabilistic assignment of cell types in scRNA-seq data

Language:RNOASSERTION191 13 89

neusomatic

NeuSomatic: Deep convolutional neural networks for accurate somatic mutation detection

Language:PythonNOASSERTION167 12 52

wot

A software package for analyzing snapshots of developmental processes

Language:Jupyter NotebookBSD-3-Clause134 12 81

pVACtools

Language:PythonBSD-3-Clause-Clear131 19 610

cellbase

High-Performance NoSQL database and RESTful web services to access to most relevant biological data

Language:JavaApache-2.088 30 421

This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.

Language:wdlBSD-3-Clause76 170

mutation-signatures

Create mutation signatures from MAF's, and decompose them into Stratton signatures

Language:R59 78 3

ghelper

谷歌上网助手手动安装包

Language:CSS54 10

seq2HLA

In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq format as input, uses a bowtie index comprising all HLA alleles and outputs the most likely HLA class I and class II genotypes (in 4 digit resolution), a p-value for each call, and the expression of each class.

Language:PythonMIT45 3 16

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