bpRNA: large-scale automated annotation and analysis of RNA secondary structure
...base pairs of each such structural feature. The bpRNA code is written in perl and requires the Graph perl module. Several additional scripts for analysis are included. The source code...2184 days ago
SOAP2 : Short Oligonucleotide Analysis Package 2
SOAPaligner/soap2 is a member of the SOAP (Short Oligonucleotide Analysis Package). It is an updated version of SOAP software for short oligonucleotide alignment. The new program featu...2184 days ago
2179 days ago
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...2143 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...2143 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 kmer counts. The following tools are currently available in KAT: hist:...1992 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...2137 days ago
transrate: Understanding your transcriptome assembly
Transrate is software for de-novo transcriptome assembly quality analysis. It examines your assembly in detail and compares it to experimental evidence such as the sequencing...2133 days ago
FastANI: fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI)
...ation of large number of genome pairs. More details about its speed, accuracy and potential applications are described here: "High-throughput ANI Analysis of 90K Prokaryotic Genomes Re...2133 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, detect base modifica...2120 days ago