wdecoster

chopper

cramino

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

methplotlib

Plotting tools for nanopore methylation data

nanocomp

Comparison of multiple long read datasets

nanofilt

Filtering and trimming of long read sequencing data

nanopack

An overview of all nanopack tools

NanoPlot

Plotting scripts for long read sequencing data

nanoQC

Quality control tools for nanopore sequencing data

nanostat

Create statistic summary of an Oxford Nanopore read dataset

STRdust

Tandem repeat genotyping from long reads

wdecoster/nano-snakemake

A snakemake pipeline for SV analysis from nanopore genome sequencing

wdecoster/DEA.R

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

wdecoster/enrichr_cli

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

wdecoster/read_length_SV_discovery

wdecoster/fast5purge

Purge a fast5 file from sensitive information

wdecoster/nanoplotter

Plotting functions of Oxford Nanopore sequencing data

wdecoster/combine_images

Bit of Python code to resize and combine images

wdecoster/determine-gender

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

wdecoster/GermlineCNVCaller

Testing the GATK4.beta.5 GermlineCNVCaller

wdecoster/nanosplit

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

wdecoster/nanosv

SV caller for nanopore data

wdecoster/pauvre

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

wdecoster/tool-packaging

Some notes on how to make a pypi package

wdecoster/bsmn-pipeline

BSMN common data processing pipeline

wdecoster/cuteSV

Long read based human genomic structural variation detection with cuteSV

wdecoster/exrede

expanded repeat detection from long reads

wdecoster/fastq-anonymous

Change the sequence of a fastq file to enable sharing of confidential information for troubleshooting

wdecoster/fastqmetrics

Extract metrics from a fastq file, streaming

wdecoster/MINTIE

Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.

wdecoster/nanogui

Graphical user interface for running nanoget

wdecoster/NanoLive

Create live plots of a run using fast5 events

wdecoster/nanoretrotect

wdecoster/problemsolved

wdecoster/samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

wdecoster/site

🎓 Rust Programming Language Tutorials for Everyone!

wdecoster/STRdust.py

wdecoster/transposon_classifier_rfsb

Transposon classification tools RFSB, part of TransposonUltimate

wdecoster/TRiCoLOR

Tadem Repeats Caller for LOng Reads

wdecoster/UMI-tools

Tools for handling Unique Molecular Identifiers in NGS data sets

wdecoster/whats_git