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
models
Models and examples built with TensorFlow
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