Pinned Repositories
ansible_playbooks
bcftools
This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html
bcfutils
bio2zarr
Convert bioinformatics file formats to Zarr
bix
tabix file access with golang using biogo machinery
deepvariant
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
docker-airflow
Docker Apache Airflow
gtdb
remove and reattach genotypes fields from bcf
pqc
population qc - generate metrics for sanity check of large pvcfs
rnavis
JakeHagen's Repositories
JakeHagen/ansible_playbooks
JakeHagen/bcftools
This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html
JakeHagen/bcfutils
JakeHagen/bio2zarr
Convert bioinformatics file formats to Zarr
JakeHagen/bix
tabix file access with golang using biogo machinery
JakeHagen/deepvariant
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
JakeHagen/docker-airflow
Docker Apache Airflow
JakeHagen/gene_expression_norm
functions and classes to normalize gene expression count data
JakeHagen/gtdb
remove and reattach genotypes fields from bcf
JakeHagen/pqc
population qc - generate metrics for sanity check of large pvcfs
JakeHagen/rnavis
JakeHagen/incubator-airflow
Apache Airflow (Incubating)
JakeHagen/irelate
Streaming relation (overlap, distance, KNN) of (any number of) sorted genomic interval sets. #golang
JakeHagen/kallisto_dock
JakeHagen/luigi
Luigi is a Python module that helps you build complex pipelines of batch jobs. It handles dependency resolution, workflow management, visualization etc. It also comes with Hadoop support built in.
JakeHagen/luigi_pipeline
JakeHagen/PhenoSV
PhenoSV: Interpretable phenotype-aware model for the prioritization of genes affected by structural variants.
JakeHagen/PSAP_cluster
JakeHagen/scipipe
Robust, flexible and resource-efficient pipelines using Go and the commandline
JakeHagen/slivar
variant expressions, annotation, and filtering for great good.
JakeHagen/TS
Torrent Suite
JakeHagen/vcfanno
annotate a VCF with other VCFs/BEDs/tabixed files
JakeHagen/vcfgo
a golang library to read, write and manipulate files in the variant call format.
JakeHagen/vcfUtils
JakeHagen/vcztools
Partial reimplementation of bcftools for VCF Zarr