Softwares

13 results - showing 1 - 10
Softwares list
I-TASSER (Iterative Threading ASSEmbly Refinement)
Submitted by Mr JP Maree - August 29, 2016, 11:13 pm

"I-TASSER server is an on-line platform for protein structure and function predictions. It allows academic users to automatically generate high-quality predictions of 3D structure and biological function of protein molecules from their amino acid sequences. I-TASSER (as 'Zhang-Server') was ranked as the No 1 server for protein structure prediction in recent community-wide CASP7, CASP8, CASP9,…

Journal/Author Estimator
Submitted by Dr Vicky Nembaware - May 12, 2016, 5:58 pm

Journal/Author Name Estimator (Jane) allows one to predict the best journal for their draft manuscript. One can submit a title or abstract.

Genephony
Submitted by Ms Kim Gurwitz - April 15, 2016, 11:15 pm

'Genephony is an online tool for the manipulation of large datasets of genomic information. It can be used as a browser for genomic data, as a high-throughput annotation tool, and as a knowledge discovery tool.' - from the website

LEfSe
Submitted by Ms Kim Gurwitz - April 8, 2016, 11:27 pm

In determining differences between two or more biological conditions, LEfSe "emphasizes both statistical significance and biological relevance, allowing researchers to identify differentially abundant features that are also consistent with biologically meaningful categories (subclasses). LEfSe first robustly identifies features that are statistically different among biological classes. It then…

MetaPhIAn2
Submitted by Ms Kim Gurwitz - April 8, 2016, 11:22 pm

"a computational tool for profiling the composition of microbial communities (Bacteria, Archaea, Eukaryotes and Viruses) from metagenomic shotgun sequencing data with species level resolution." - from the website
Workflow available in Galaxy.

HUMAnN2
Submitted by Ms Kim Gurwitz - April 8, 2016, 11:18 pm

"HUMAnN is a pipeline for efficiently and accurately profiling the presence/absence and abundance of microbial pathways in a community from metagenomic or metatranscriptomic sequencing data." - from the website. This tool uses 'functional profiling' to ask "What are the microbes in my community-of-interest doing (or capable of doing)?"

VarElect
Submitted by Ms Kim Gurwitz - April 8, 2016, 11:17 pm

*Interpret next generation sequencing results
*Identify & Prioritize genes and variants according to their relevance to diseases and phenotypes of interest
*Explore relationships between genes and gene variants and selected diseases or phenotypes via relevant pathways, interaction networks and publications
*Discover biomarkers for diseases
-from the website.

Endeavour
Submitted by Ms Kim Gurwitz - April 1, 2016, 11:32 pm

"Candidate genes prioritization through genomic data fusion" - from the Endeavour website

eXtasy
Submitted by Ms Kim Gurwitz - April 1, 2016, 11:30 pm

This tool "takes into account the putative deleteriousness of the variant, haploinsufficiency predictions of the underlying gene and the similarity of the given gene to known genes in the given phenotype" - from the eXtasy website

Splicing-based Analysis of Variants (SPANR)
Submitted by Ms Kim Gurwitz - April 1, 2016, 8:51 pm

"SPANR addresses a key unmet challenge in genomics research, which is to ascertain how single nucleotide variations (SNVs) cause splicing misregulation and may lead to disease. Unlike any other approach, this tool can analyze synonymous, missense and nonsense exonic SNVs, as well as intronic SNVs that are up to 300nt from splice junctions." - from the SPANR website

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