nanofilt: Filtering and trimming of long read sequencing data
Filtering on quality and/or read length, and optional trimming after passing filters.Reads from stdin, writes to stdout. Intended to be used: directly after fastq extraction prior to mapping in a stream between extraction and mapping https://github.com/wdecoster/nanofilt2162 days ago
LSC :a long read error correction tool
Getting Started These simple steps will help you integrate LSC into your transcriptomics an...package. Follow the tutorial to see how LSC works on some example data. Read the manual i...2160 days ago
NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
NextSV, a meta SV caller and a computational pipeline to perform SV calling from low coverage long-read sequencing data. NextSV integrates three alig...2155 days ago
2155 days ago
PureCN: copy number calling and SNV classification using targeted short read sequencing
This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and clas...c status and clonality. PureCN is designed for targeted short read sequencing data, integrates well with standar...2153 days ago
mmgenome: Tools for extracting individual genomes from metagneomes
The mmgenome toolbox enables reproducible extraction of individual genomes from metagenomes....he mmgenome R package also facilitates effortless integration with additional data sources and hence should not...2152 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
FMLRC, or FM-index Long Read Corrector, is a tool for performing hybrid correcti...ad sequencing using the BWT and FM-index of short-read sequencing data. Given a BWT of the short-read sequencing data, FMLRC will build an FM-index...2151 days ago
NanoPack: visualizing and processing long-read sequencing data
The NanoPack tools are written in Python3 and released under the GNU GPL3.0 License. The source code can be found at https://github.com/wdecoster/nanopack, togeth...2151 days ago
Bokeh: An interactive visualization library that targets modern web browsers for presentation
Bokeh is an interactive visualization library that targets modern...ormance interactivity over very large or streaming datasets. Bokeh can help anyone wh...d easily create interactive plots, dashboards, and data applications. To get started...2151 days ago
miREM: an expectation-maximization approach for prioritizing miRNAs associated with gene-set
From list of genes... ... to microRNAs Using established miRNA-interaction databases, miREM combines hypergeometric and expectation-maximization algorithms to sieve through your genetic data for microRNA signatures https://bioinfo-csi.nus.edu.sg/mirem2/2146 days ago