d3Network:Tools for creating D3 JavaScript network, tree, dendrogram, and Sankey graphs from R.
Mike Bostock’s D3.js is great for creating interactive network...network graphs from R. The main idea is that you should able to take an R data frame with information about...2279 days ago
ALPHA: A Toolkit for Automated Local Phylogenomic Analyses
Automated Local Phylogenomic Analyses, or ALPHA, is a python-based application that provides an intuitive user interface for phylogenetic analyses and data visualization. It has four di...2295 days ago
EWAS: epigenome-wide association study software 2.0
EWAS2.0 can analyze EWAS data and identify the association between epigenetic variations and disease/phenotype. On the basis of EWAS1.0, we have added more distinctive features. E...2295 days ago
SciLifeLab tutorial for bioinformatics analysis !
SciLifeLab is a national center for molecular biosciences with focus on health and...mber - Uppsala2017 November - Uppsala Introduction to Bioinformatics Using NGS Data 2015 February - Uppsala ...2269 days ago
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DendroPy: a Python library for phylogenetic computing
DendroPy is a Python library for phylogene...he reading and writing of phylogenetic data in a range of formats, such a...seful phylogenetic operations, such as data conversion and tree posterior...documentation . Descriptions of data formats supported for reading...2263 days ago
ALPACA: A hybrid strategy for assembly of genomic DNA shotgun sequencing reads.
ALPACA requires Celera Assembler 8.3 or later. It is recommended to build Celera Assembler from source. (Why? The pre-built binaries CA_8.3rc1 and CA8.3rc2 will work for any large data set. Detail paper at https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-017-3927-82256 days ago
MITObim - mitochondrial baiting and iterative mapping
This document contains instructions on how to use the MI...line was originally developed for Illumina data, but thanks to the versatilit...e MIRA assembler, MITObim supports in principle also data from the Iontorrent,&nbs...2248 days ago
MIX: Combining multiple assemblies from NGS data
Mix is a tool that combines two or more draft assemblies, without relying on a reference genome and has the goal to reduce contig fragmentation and thus speed-up genom...2248 days ago
kWIP: The k-mer weighted inner product, a de novo estimator of genetic similarity
The k-mer Weighted Inner Product. This software implements a de novo, alignment fr...ng one. De novo estimates of genetic relatedness from next-gen sequencing data https://kwip.readthedocs.org2226 days ago