NAViGaTOR: Network Analysis, Visualization and Graphing Toronto
NAViGaTOR – Network Analysis, Visualization, & Graphing TORonto is a software system for scaleabl...scaleability, extends input/output options, brings new network views and analysis algorithms. http://142.150...2190 days ago
RNA-seq Analysis Workshop Course Materials
RNAseq can be roughly divided into two "types": Reference genome-based - an assembled genome exists for a species for which an RNAseq experiment is performed. It allo...2190 days ago
KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq) using kme...gram of k-mer occurrences from a sequence file. Adds metadata in output...ed K-mers between two (or three) sequence files or hashes. sect: SEque...d GC tolerances. seq: Filters a sequence...2038 days ago
ASAR: Advanced metagenomic Sequence Analysis in R
An interactive data analysis tool for selection, aggregation and visualization of metagenomic data is presented. Functional analysis with a SEED hierarchy and pat...2184 days ago
transrate: Understanding your transcriptome assembly
Transrate is software for de-novo transcriptome assembly quality analysis. It examines your assembly in de...2180 days ago
FastANI: fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI)
...ris et al. 2007. However, it avoids expensive sequence alignments and uses Mashmap as its MinHash based sequence mapping engine to compute the...ions are described here: "High-throughput ANI Analysis of 90K Prokaryotic Genomes Re...2179 days ago
Nanopolis: polish a genome assembly
Software package for signal-level analysis of Oxford Nanopore sequencing data. Nanopolish can calculate an improved consensus sequence for a draft genome assembly,...2167 days ago
ARC: pipeline which facilitates iterative, reference guided de novo assemblies
...d de novo assemblies with the intent of: Reducing time in analysis and increasing accuracy of re...o assemble discreet 'targets' contained within next-generation shotgun sequence data. ARC decomplexifies the...2167 days ago
LSC :a long read error correction tool
Getting Started These simple steps will help you integrate LSC into your transcriptomics analysis pipeline. Read the LS...2160 days ago
gSearch: a fast and flexible general search tool for whole-genome sequencing
gSearch compares sequence variants in the Genome Variation Format (GVF) or Variant Call Format (VCF) with a pre-compiled annotation or with variants in other genomes. Its search algorithms are subsequently optimized and implemented in a multi-threaded manner.2155 days ago