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afterqc

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

alphafold

Open source code for AlphaFold.

annovarr

annovarR: a variant annotation and visualization system based on R and Shiny framework

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

bgi-soap2

Source code and binaries for the SOAP2 alignment tool developed by BGI.

bwa

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

cfdna_footprint

A pipeline for nucleosome identification

clairvoyante

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

coursera-ml-andrewng

use numpy, scipy, and tensorflow to implement these basic ML model and learning algorithm

crcscreen

bioinformatics pipline for CRC Screen project

cs-notes

:books: 技术面试必备基础知识、Leetcode 题解、后端面试、Java 面试、春招、秋招、操作系统、计算机网络、系统设计

d3

Bring data to life with SVG, Canvas and HTML. :bar_chart::chart_with_upwards_trend::tada:

data-science-ipython-notebooks

Data science Python notebooks: Deep learning (TensorFlow, Theano, Caffe, Keras), scikit-learn, Kaggle, big data (Spark, Hadoop MapReduce, HDFS), matplotlib, pandas, NumPy, SciPy, Python essentials, AWS, and various command lines.

dataprocessingpipeline

GATK-DataProcessingPipeline

ddcfdna

Quantification of transplant-derived circulating cell-free DNA in absence of a donor genotype

duplex-sequencing

eegfeatures

EEG Features to be extract from raw data.

fastp

A Fast and All-in-one Preprocessor for FastQ files

fusionscan

Gene fusion detection and visualization

gatk

GATK Official Release Repository

gatk-qscripts

GATK QScripts used in our illumina variant calling pipeline.

gatk_pipeline

GATK Pipeline: Recalibrates mapping qualities and calls variants using GATK

gce-ubuntu-server-14.04

Ubuntu Server 14.04 Image for Googles Compute Engine Managed VMs

gencore

Generate consensus reads to reduce sequencing noises

goagent-original

原始的goagent版本，是从https://github.com/goagent/goagent 删除前拉取的，此处作为备份

hla-la

Fast HLA type inference from whole-genome data

homebrew-biobakery

Biobakery formulae for the Homebrew package manager

ike

Interactive Knowledge Extraction tool

iva

de novo virus assembler of Illumina paired reads

jellyfish

A fast multi-threaded k-mer counter