Fulcrum Genomics

All

66 repositories

fgsv
Public
Tools to gather evidence for structural variation via breakpoint detection.
rust bioinformatics genomics breakpoint structural-variants
Scala
•
MIT License
•1•19•10•7•Updated Dec 18, 2025Dec 18, 2025
fgbio
Public
Tools for working with genomic and high throughput sequencing data.
bioinformatics scala genomics ngs umi analyzing-genomic-data fgbio molecular-indexes
Scala
•
MIT License
•75•350•47•19•Updated Dec 17, 2025Dec 17, 2025
fqgrep
Public
Grep for FASTQ files
rust bioinformatics genomics sequence-search grep fastq
Rust
•
MIT License
•4•103•6•7•Updated Dec 17, 2025Dec 17, 2025
fgpyo
Public
Quality of life improvements for Bioinformatics in Python.
python bioinformatics genomics
Python
•
Other
•3•31•24•7•Updated Dec 17, 2025Dec 17, 2025
fglatch
Public
CLI and Python extensions for the LatchBio platform.
python cli bioinformatics latchbio
Python
•
MIT License
•0•0•11•0•Updated Dec 16, 2025Dec 16, 2025
fgsmk
Public
Supporting Python functions for running Snakemake workflows
python workflow bioinformatics snakemake test-automation testing-tools
Python
•
MIT License
•0•0•5•0•Updated Dec 16, 2025Dec 16, 2025
fgprimer
Public
APIs and wrappers for performing PCR primer design related tasks
Scala
•
MIT License
•1•0•4•1•Updated Dec 15, 2025Dec 15, 2025
fgoxide
Public
Quality of life improvements in Rust.
rust bioinformatics utilities
Rust
•
MIT License
•3•6•2•4•Updated Dec 7, 2025Dec 7, 2025
nf-fgsv
Public
Small workflow to run fgsv and test new nextflow features.
Nextflow
•
MIT License
•0•0•0•0•Updated Dec 5, 2025Dec 5, 2025
fqtk
Public
Fast FASTQ sample demultiplexing in Rust.
rust bioinformatics genomics fastq demultiplexing
Rust
•
MIT License
•2•66•7•7•Updated Dec 2, 2025Dec 2, 2025
setup-latch
Public
TypeScript
•
MIT License
•3•6•8•0•Updated Nov 27, 2025Nov 27, 2025
gha-timer
Public
Time and group logs for GitHub actions
Python
•
MIT License
•0•2•0•0•Updated Nov 27, 2025Nov 27, 2025
commons
Public
Common scala utilities
bioinformatics scala utilities
Scala
•
MIT License
•3•5•10•1•Updated Nov 25, 2025Nov 25, 2025
pybedlite
Public
Lightweight Python interfaces for reading, writing, and querying genomic regions (BED)
python bioinformatics genomics bed-files
Python
•
Other
•1•14•1•0•Updated Nov 25, 2025Nov 25, 2025
bgzf
Public
BGZF compression library in Rust
rust bioinformatics compression genomics
Rust
•0•2•0•0•Updated Nov 24, 2025Nov 24, 2025
stitch
Public
Toolkit for analyzing chimeric reads and structural variants in sequencing data
rust bioinformatics genomics structural-variants chimieric-reads
Rust
•
MIT License
•3•10•14•1•Updated Nov 24, 2025Nov 24, 2025
pybwa
Public
Python language bindings for bwa
bioinformatics genomics
Cython
•
MIT License
•1•11•2•4•Updated Nov 24, 2025Nov 24, 2025
prymer
Public
Python Primer Design Library
python bioinformatics genomics primer-design
Python
•
MIT License
•0•14•35•1•Updated Nov 24, 2025Nov 24, 2025
read-structure
Public
Read structures in rust
rust bioinformatics genomics sequencing
Rust
•
MIT License
•3•3•0•1•Updated Nov 24, 2025Nov 24, 2025
aws-setup
Public
a repo to develop a simple script that installs everything we need on a new AWS instance
Shell
•0•0•0•0•Updated Nov 21, 2025Nov 21, 2025
nf-dotenv
Public
Automatically source dotenv files into your Nextflow scope
dotenv nextflow
Groovy
•
Other
•0•9•0•0•Updated Nov 21, 2025Nov 21, 2025
sopt
Public
An argument parsing library for Scala
scala argument-parsing
Scala
•
MIT License
•0•11•4•1•Updated Oct 24, 2025Oct 24, 2025
fetch-through-merge-base
Public
A GitHub Action for fetching PR commits through the merge-base
Python
•
MIT License
•0•0•1•1•Updated Sep 29, 2025Sep 29, 2025
viral-pipelines
Public
viral-ngs: complete pipelines
WDL
•
Other
•30•0•0•0•Updated Sep 18, 2025Sep 18, 2025
warp
Public
WDL Analysis Research Pipelines
WDL
•
BSD 3-Clause "New" or "Revised" License
•112•1•0•1•Updated Sep 15, 2025Sep 15, 2025
nf-core-modules
Public
Repository to host tool-specific module files for the Nextflow DSL2 community!
Nextflow
•
MIT License
•952•0•0•1•Updated Sep 14, 2025Sep 14, 2025
gatk
Public
Official code repository for GATK versions 4 and up
Java
•
Other
•623•0•0•0•Updated Sep 3, 2025Sep 3, 2025
.github
Public
MIT License
•0•1•0•0•Updated Aug 6, 2025Aug 6, 2025
dxCompiler
Public
WDL and CWL compiler for the DNAnexus platform
Scala
•
Apache License 2.0
•17•0•0•0•Updated Jun 16, 2025Jun 16, 2025
bwa-aln-interactive
Public
BWA aln interactive: Burrow-Wheeler Aligner for pairwise alignment between DNA sequences
C
•
GNU General Public License v3.0
•1•0•4•0•Updated Jun 2, 2025Jun 2, 2025