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/sqlite_zstd_vfs
SQLite3 extension for read/write storage compression with Zstandard
Language:C++165 10 010
mlin/GenomicSQLite
Genomics Extension for SQLite
Language:C++162 5 011
mlin/PhyloCSF
Phylogenetic analysis of multi-species genome sequence alignments to identify conserved protein-coding regions
Language:OCaml63 16 3124
mlin/spVCF
Sparse Project VCF: evolution of VCF to encode population genotype matrices efficiently
Language:C++58 6 171
mlin/sqlite_web_vfs
SQLite3 extension for read-only HTTP(S) database access
Language:C++51 6 03
mlin/gfabase
GFA insert into GenomicSQLite
Language:Jupyter Notebook48 6 02
mlin/iitii
Implicit Interval Tree with Interpolation Index
Language:Jupyter Notebook41 7 54
mlin/gvcf_norm
gVCF allele normalizer
Language:Rust8 2 01
mlin/GLnext
Scalable gVCF merging and joint variant calling
Language:Kotlin5 3 1
mlin/vcf_line_splitter
Split a huge VCF file into parts, quickly
Language:C++5 2 0
mlin/miniwdl-cloud
SUPERSEDED BY https://github.com/miniwdl-ext/miniwdl-aws
Language:HCL4 5 11
mlin/miniwdl
A static analysis toolkit for the Workflow Description Language
Language:Python2 2 06
mlin/fastp
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
Language:C++1 1 0
mlin/GenomicSQLite-examples
Language:C1 3 0
mlin/RGenomicSQLite
[WIP / not yet ready] R bindings package for GenomicSQLite
Language:R1 2 0
mlin/ai4sqlite3
Natural language query assistant for SQLite databases
Language:Python2 0
mlin/chanzuckerberg.r-universe.dev
Configuration for publishing to R-Universe
1 0
mlin/cpython
The Python programming language
Language:Python1 0
mlin/GFA-spec
Graphical Fragment Assembly (GFA) Format Specification
Language:Makefile2 0
mlin/hts-specs
Specifications of SAM/BAM and related high-throughput sequencing file formats
Language:TeX2 0
mlin/htslib
C library for high-throughput sequencing data formats.
Language:C2 0
mlin/idseq-web
Infectious Disease Sequencing Platform
Language:JavaScript2 0
mlin/iitj
Implicit Interval Trees (for Java)
Language:Java2 2
mlin/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
Language:C1 0
mlin/minimap2-scatter
WIP proof-of-concept
Language:wdl2 0
mlin/mlin
3 1
mlin/mlin.r-universe.dev
2 0
mlin/SQLiteCpp
SQLiteC++ (SQLiteCpp) is a smart and easy to use C++ SQLite3 wrapper.
Language:C2 0
mlin/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
Language:Python2 0
mlin/TileDB-SOMA
TileDB implementation of the single-cell SOMA API
Language:Python1 0