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aegea

Amazon Web Services Operator Interface

cellranger

10x Genomics Single Cell 3' Gene Expression and VDJ Assembly

cellranger_clean

10x Cell Ranger Docker Image

cellxgene-rest-api

Rest API layer for cellxgene project

dconvert

dcp-cli

HCA Data Coordination Platform Command Line Interface

dcplib

A library of modules shared among multiple Data Coordination Platform components

deepsheep

dotfiles

dx_test_demo

Continuous integration for DNAnexus applets

dxwdl

Workflow Description Language compiler for the DNAnexus platform

emfusion

failing_allocs

Override malloc to fail whenever it is called with a previously unseen backtrace. Useful for unit testing.

fastxio

FASTA/FASTQ parser. Wraps kseq.h to provide interface of pbcore.io.FastqIO and pbcore.io.FastaIO

freebayes

Bayesian haplotype-based polymorphism discovery and genotyping.

fusioncatcher

Somatic fusion genes finder for RNA-seq data

hackathon-jupyterhub

hca-hinxton-hackathon

Resources for the Human Cell Atlas hackathon in Hinxton

hca_jamboree_cell_identification

The Human Cell Atlas Jamboree task 1 and 3. Identifying cells from single-cell RNA-seq droplet data (including removing erroneous molecules and determining dead and damaged cell)

htslib_dnanexus_plugin

intervaltree

a minimal C++ interval tree implementation

libpalindrome

Find gapped palindromes in linear time.

martian

Language and framework for high performance computational pipelines.

nexusworld-developer-workshop

numcodecs

A Python package providing buffer compression and transformation codecs for use in data storage and communication applications.

overlapviewer

pysam

Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.

qv_compress

Use vector quantization to compress PacBio quality values.

rstudio

RStudio is an integrated development environment (IDE) for R

sceasy

A package to help convert different single-cell data formats to each other