Beast code in Giters

Youri Hoogstrate's repositories

fastafs

toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files

Language:C++GPL-2.021 1 20

bam-lorenz-coverage

Generate Lorenz plots and Coverage plots directly from BAM files

Language:PythonGPL-3.09 2 4

flaimapper

:honeybee: Fragment Location Annotation Identification Mapper: computational annotation of small ncRNA-derived fragments using RNA-seq high-throughput data

Language:PythonGPL-3.05 4 7

fuma

:dash::leopard: FuMa: reporting overlap in RNA-seq detected fusion genes

Language:PythonGPL-3.05 5 12

gsam

Language:ShellMIT300

recursiveCorPlot

Recursive correlation based natural clustering (using ggplot, labels and historgrams)

Language:RGPL-3.03 20

dr-disco

:mask::loudspeaker: Dr. Disco: detecting genomic breakpoints of fusion transcripts in random hexamer RNA-seq data

Language:PythonGPL-3.01 2 24

egfr-v3-determiner

Free open-source tool to extract counts of spliced EGFR vIII / EGFR non-vIII (wt) reads

Language:PythonGPL-3.01 1 1

pymnp

Python 3 API and batch downloader/re-runner for the MolecularNeuropathology brain classifier

Language:PythonGPL-3.01 10

scRNA-glioma-project

single-cell and single-nucleus RNA-seq analysis of public data

Language:RGPL-3.01 30

scRNA-glioma-workflows

Workflows for the processing of public and in-house spatial and/or single cell/nucleus RNA-seq glioma datasets

Language:R100

bioconda-recipes

Conda recipes for the bioconda channel.

Language:Shell000

segmentation-fold

:triangular_ruler: segmentation-fold: RNA folding including K-turns

Language:C++GPL-3.002 10

bio-kernel

Official landing place of the bio-kernel project

Language:CGPL-2.0000

cmatrix

Terminal based "The Matrix" like implementation

Language:CGPL-3.0010

disc-art

Disc-Art - some kind of omics artifact analyser

Language:Python010

ega-upload

README how to upload seq data into EGA

010

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting...)

Language:C++MIT020

fibronectin-splice-variant-detector

Language:PythonGPL-3.0000

geomnet

Examples and data for geom_net

Language:R010

naf

Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences

Zlib000

pymetharray

Modified fork of "Python-based preprocessing software for Illumina methylation arrays"

Language:PythonMIT000

sc_seurat

Scripts for single-cell 'omics analysis

GPL-3.0000

seqtk

Toolkit for processing sequences in FASTA/Q formats

Language:CMIT010

snoekdobber3d

3D printer modellen voor snoekdobbers

Language:OpenSCAD000

SoupX

R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data

Language:R010

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

Language:PythonBSD-3-Clause000

tacc3-fgfr3-bam-quick-scanner

Quick scan for reads mapped to both TACC3 and FGFR3 in order to find fusions

Language:PythonGPL-3.0000

tools-iuc

Tool Shed repositories maintained and developed by the Intergalactic Utilities Commission

Language:PythonMIT010

vg

tools for working with variation graphs

Language:C++MIT000