jlanej's repositories
samtools-view
sam tools view workflow
cue
Deep learning framework for SV calling and genotyping
docker-bcftools
Docker container for bcftools
ExomeDepth
ExomeDepth R package for the detection of copy number variants in exomes and gene panels using high throughput DNA sequencing data.
flashpca
Fast Principal Component Analysis of Large-Scale Genome-Wide Data
gtc2vcf
Tools to convert Illumina IDAT/BPM/EGT/GTC and Affymetrix CEL files to VCF
HLA-LA
Fast HLA type inference from whole-genome data
IGV-VM
Build IGV instance that can take screenshots without a GUI or X11
igv-xvfb
IGV with Xvfb
long-read-plot
Exploratory plots for long read sequencing data
louvain
Java implementation of the Louvain method of community detection in graphs
mochawdl
MoChA WDL pipelines
NGS-TL
Estimate telomere length (TL) from whole genome sequencing
pav
Phased assembly variant caller
PHESANT
PHESANT - PHEnome Scan ANalysis Tool (pheWAS, Mendelian randomisation (MR)-pheWAS etc.) in UK Biobank
pio
python bio
riverway-gis
GIS data for life on river way
rpi-security
A security system written in python to run on a Raspberry Pi with motion detection and mobile notifications
RUFUS
RUFUS k-mer based genomic variant detection
samplot
Plot structural variant signals from many BAMs and CRAMs
Sniffles
Structural variation caller using third generation sequencing
systemd-ngrok
Automatically start ngrok by systemd
TensorFlow-Object-Detection-on-the-Raspberry-Pi
A tutorial showing how to set up TensorFlow's Object Detection API on the Raspberry Pi
truvari
Structural variant toolkit for VCFs
TT-Mars
Structural Variants Assessment Based on Haplotype-resolved Assemblies
VAtools
A set of tools to annotate VCF files with expression and readcount data