academic.oup.com - Motivation: The Oxford Nanopore MinION device represents a unique sequencing technology. As a mobile sequencing device powered by the USB port of a laptop, the MinION has huge potential applications. To enable these applications, the...
github.com - netGO is an R/Shiny package for network-integrated pathway enrichment analysis.netGO provides user-interactive visualization of enrichment analysis results and related networks.
Currently, netGO supports analysis for four species...
github.com - R Package to visualize alignments between two or multiple DNA sequences includinga number of functionalities to facilitate processing of alignments in PAF format.
SVbyEye, an open-source R package to visualize and annotate sequence-to-sequence...
help.rc.ufl.edu - More at https://help.rc.ufl.edu/doc/Kmer
This also includes:
A2Amapper: ATAC, Assembly to Assembly Comparision tool:
Comparative mapping between two genome assemblies (same species), or between two different genomes (cross...
github.com - Kalign is a fast multiple sequence alignment program for biological sequences.
Align sequences and output the alignment in MSF format:
kalign -i BB11001.tfa -f msf -o out.msf
Align sequences and output the alignment in clustal format:
kalign...
www.csie.ntu.edu.tw - LIBSVM is an integrated software for support vector classification, (C-SVC, nu-SVC), regression (epsilon-SVR, nu-SVR) and distribution estimation (one-class SVM). It supports multi-class classification.
Since version 2.8, it...
soap.genomics.org.cn - 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 features in super fast and accurate alignment for huge amounts of...
bitbucket.org - S-plot2 creates an interactive, two-dimensional heatmap capturing the similarities and dissimilarities in nucleotide usage between genomic sequences (partial or complete). In S-plot2, whole eukaryotic chromosomes and smaller prokaryotic genomes can...
github.com - SHAMAN is a shiny application for differential analysis of metagenomic data (16S, 18S, 23S, 28S, ITS and WGS) including bioinformatics treatment of raw reads for targeted metagenomics, statistical analysis and results visualization with a large...
