mlin

Genome informatics R&D

Honolulu, HI, USA

Pinned Repositories

forkwork
OCaml library for forking child processes to perform work on multiple cores
Language:OCaml19 6 33
GenomicSQLite
Genomics Extension for SQLite
Language:C++162 5 011
gfabase
GFA insert into GenomicSQLite
Language:Jupyter Notebook48 6 02
iitii
Implicit Interval Tree with Interpolation Index
Language:Jupyter Notebook41 7 54
PhyloCSF
Phylogenetic analysis of multi-species genome sequence alignments to identify conserved protein-coding regions
Language:OCaml63 16 3124
should.ml
Literate assertions for OCaml
Language:OCaml18 4 12
spVCF
Sparse Project VCF: evolution of VCF to encode population genotype matrices efficiently
Language:C++58 6 171
sqlite_web_vfs
SQLite3 extension for read-only HTTP(S) database access
Language:C++51 6 03
sqlite_zstd_vfs
SQLite3 extension for read/write storage compression with Zstandard
Language:C++165 10 010
twt
The Whitespace Thing for OCaml
Language:OCaml10 3 61

mlin's Repositories

mlin/forkwork
OCaml library for forking child processes to perform work on multiple cores
Language:OCaml19 6 33
mlin/should.ml
Literate assertions for OCaml
Language:OCaml18 4 12
mlin/blogging-my-genome
DNAnexus platform applets for analyzing my genome, and associated notes
Language:OCaml7 4 12
mlin/RocksWorm
Access RocksDB databases over HTTPS for write-once/read-many use cases
Language:C++2 3 0
mlin/stakesign
Sign files via blockchain + put your money where your mouth is
Language:Python2 3 0
mlin/pfda2dockstore
Export precisionFDA apps to Dockstore
Language:Python1 2 05
mlin/appversion
AppVersion is a CLI tool whose purpose is to provide a unique manager of the version of you application.
Language:JavaScript2 0
mlin/atac-seq-pipeline
ENCODE ATAC-seq pipeline
Language:Python2 01
mlin/blobxfer
AzCopy-like OS independent Azure storage blob and file share transfer tool
Language:Python2 0
mlin/cloud-workstation
Bootstrapping scripts for cloud workstation with mosh and x2go
Language:Shell3 0
mlin/DeepVariant-GLnexus-WDL
WDL workflow for population variant calling using htsget, DeepVariant, and GLnexus
Language:WDL2 0
mlin/dna-me-pipeline
DCC/DAC methylation pipeline source
Language:Perl
mlin/dx-ocaml
DNAnexus platform API bindings for OCaml
Language:OCaml2 2
mlin/ga4gh-schemablocks.github.io
Website of the GA4GH SchemaBlocks Project
Language:HTML2 0
mlin/GLnexus
Scalable gVCF merging and joint variant calling for population sequencing projects
Language:C++
mlin/idseq-dag
Pipeline engine for IDseq (Infectious Disease Sequencing Platform)
Language:Python2 0
mlin/lark-parser-feedstock
A conda-smithy repository for lark-parser.
Language:Shell2 0
mlin/miniwdl-feedstock
A conda-smithy repository for miniwdl.
Language:Shell2 0
mlin/miniwdl-s3parcp
MiniWDL s3parcp plugin
Language:Python2 0
mlin/mlin.net_playbooks
Ansible playbooks for mlin.net
Language:Shell2 0
mlin/nvidia-docker
Build and run Docker containers leveraging NVIDIA GPUs
Language:Shell3 0
mlin/pygtail-feedstock
A conda-smithy repository for pygtail.
Language:Shell2 0
mlin/pytest-wdl
WDL plugin for pytest
Language:Python2 0
mlin/rocksdb
Embedded key-value store for fast storage
Language:C++
mlin/shasta
De novo assembly from Oxford Nanopore reads.
Language:C++2 0
mlin/sphinx-with-markdown
This is an exploration of using Sphinx with Markdown
2 0
mlin/sqlite_zstd_rovfs
SUPERSEDED BY: https://github.com/mlin/sqlite_zstd_vfs
Language:C3 0
mlin/tk1_playbooks
Ansible playbooks for my Jetson TK1
Language:Shell2 0
mlin/viral-pipelines
viral-ngs: complete pipelines
Language:WDL2 0
mlin/wdl
Workflow Description Language - Specification and Implementations
Language:Java1