vejnar

FONtools

JSON-based FON (Feature Object Notation) format and tools to simplify genomic annotations usage

LabxPipe

Genomics pipelines

GeneAbacus

Counts and profiles sequencing reads within genes, chromosomes or constructs.

LabxDB

Versatile databases for genomic sequencing and lab management

ReadKnead

Knead your sequencing reads before baking: clips, demultiplexes, filters and trims reads

failing-disk-reporter

Failing Disk Reporter (FDR): Get a report when a drive (HDD or SDD) is failing via Matrix or Slack. MIRROR

notebooks

My Jupyter Notebooks

nwalgo

Needleman-Wunsch Alignment in Go

pyfnutils

Small utility functions for Python: logging, parallel tasks, zstd

apptainer

Apptainer: Application containers for Linux

bowtie2

A fast and sensitive gapped read aligner

chromap

Fast alignment and preprocessing of chromatin profiles

ChromosomeMappings

This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.

deque

Fast ring-buffer deque (double-ended queue)

GeneAbacus-python

Python IO functions for GeneAbacus

hts

biogo high throughput sequencing repository

LabxDB-tools

This is a mirror for LabxDB tools. Issues and PRs on GitLab.

lego

Let's Encrypt client and ACME library written in Go

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

miRmap

Comprehensive prediction of microRNA target repression strength

paru

Feature packed AUR helper

rappdirs

Find OS-specific directories to store data, caches, and logs. A port of python's AppDirs

SensorAlarmChart

Tracks Bluetooth Low Energy (BLE) sensors like Freezer Temperature. Sends alarms on Slack or Matrix. Install on Raspberry Pi.

skewer

starcode

All pairs search and sequence clustering

zstd

Zstandard - Fast real-time compression algorithm