Wouter De Coster

NanoPlot. Plotting scripts for long read sequencing data

nanopack. An overview of all nanopack tools

chopper. Rust

nanofilt. Filtering and trimming of long read sequencing data

cramino. A *fast* tool for BAM/CRAM quality evaluation, intended for long reads

nanocomp. Comparison of multiple long read datasets

nanostat. Create statistic summary of an Oxford Nanopore read dataset

nanoQC. Quality control tools for nanopore sequencing data

methplotlib. Plotting tools for nanopore methylation data

nano-snakemake. A snakemake pipeline for SV analysis from nanopore genome sequencing

nanolyse. Remove lambda phage reads from a fastq file

STRdust. Tandem repeat genotyping from long reads

kyber. Rust

DEA.R. Script to automate differential expression analysis using DESeq2, edgeR or limma-voom

surpyvor. A python wrapper around SURVIVOR

phasius. Rust

inquiSTR. Genotyping of STRs with long reads

nanoget. Functions to extract information from Oxford Nanopore sequencing data and alignments

nanomath. A few simple math function for other Oxford Nanopore processing scripts

PromisingPreprint. A python twitter bot tweeting about preprints reaching an interesting altmetric score

pathSTR. Repository with code for the analysis of pathogenic STRs in the 1000G ONT resequencing data

enrichr_cli. Python script to use enrichr from command line (http://amp.pharm.mssm.edu/Enrichr/)

nanoget-rs. Rust implementation of nanoget - fast extraction of nanopore sequencing metrics

nanotest. Small test datasets for testing nanopack scripts and modules

make_arrow. A Rust tool to create an arrow file from a cram/bam file

read_length_SV_discovery. Jupyter Notebook

fast5purge. Purge a fast5 file from sensitive information

nanoplotter. Plotting functions of Oxford Nanopore sequencing data

nanosv. SV caller for nanopore data

tool-packaging. Some notes on how to make a pypi package

GermlineCNVCaller. Testing the GATK4.beta.5 GermlineCNVCaller

determine-gender. Scripts to determine the gender of samples in exome and transcriptome sequencing

combine_images. Bit of Python code to resize and combine images

minimap2-rs. Rust

nanosplit. Splitting Oxford Nanopore data in a fail and pass dataset using a user defined quality cutoff

pauvre. Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.