Results for "Analysis"
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MGcV: the microbial genomic context viewer for comparative genome analysis
MGcV is an interactive web-based visalization tool tailored to facilitate small scale genome analysis. To start using MGcV: Supply your genes/genomic segments/phylogenetic tree of interest in the input-box by selecting the type of identifier and pasting identifiers (one per line) or b...Tags: MGcV, microbial, genomic, context, viewer, comparative, genome, analysis
2285 days ago
GenomeTools: The versatile open source genome analysis software
The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary named gt. It is based on a C library named “libgenometools” which consists of several modules. If ...Tags: GenomeTools, versatile, open, source, genome, analysis, software
2275 days ago
Mesquite: A modular system for evolutionary analysis
Mesquite is modular, extendible software for evolutionary biology, designed to help biologists organize and analyze comparative data about organisms. Its emphasis is on phylogenetic analysis, but some of its modules concern population genetics, while others do non-phylogenetic multivariate analys...Tags: Mesquite, modular, system, evolutionary, analysis
2242 days ago
bpRNA: large-scale automated annotation and analysis of RNA secondary structure
bpRNA, a novel annotation tool capable of parsing RNA structures, including complex pseudoknot-containing RNAs, to yield an objective, precise, compact, unambiguous, easily-interpretable description of all loops, stems, and pseudoknots, along with the positions, sequence, and flanking base pairs ...Tags: bpRNA, large-scale, automated, annotation, analysis, RNA, secondary, structure
2171 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: Create an histogram of k-mer occurrences from a sequence file. Adds metadata in output for easy plotting. gcp: K-mer GC Pr...Tags: KAT, K-mer, analysis, toolkit, quality, control, NGS, datasets, genome, assemblies
1978 days ago
EGAD: Ultra-fast functional analysis of gene networks
With the EGAD (Extending ‘Guilt-by-Association’ by Degree) package, we present a series of highly efficient tools to calculate functional properties in networks based on the guilt-by-association principle. These allow rapid controlled comparisons and analyses. Two of the core features...Tags: EGAD, Ultra-fast, functional, analysis, gene, networks
1966 days ago
snakepipes: A toolkit based on snakemake and python for analysis of NGS data
snakePipes are flexible and powerful workflows built using snakemake that simplify the analysis of NGS data. DNA-mapping* ChIP-seq* RNA-seq* ATAC-seq* scRNA-seq Hi-C Whole Genome Bisulfite Seq/WGBS (*Also available in "allele-specific" mode) snakePipes can be installed via ...Tags: snakepipes, toolkit, snakemake, python, analysis, NGS
1799 days ago
- The Environment for Tree Exploration (ETE) is a Python programming toolkit that assists in the recontruction, manipulation, analysis and visualization of phylogenetic trees (although clustering trees or any other tree-like data structure are also supported). Other tools https://github.com/shenw...
Tags: Environment, Tree, Exploration, ETE, Python, toolkit, recontruction, manipulation, analysis, visualization, phylogenetic, trees
1618 days ago
- DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data. DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data. DeepVariant relies on ...
Tags: DeepVariant, analysis, pipeline, deep, neural, network, genetic, variants, next-generation, DNA, sequencing, data
1558 days ago
- The application Bio7 is an integrated development environment for ecological modeling, scientific image analysis and statistical analysis. The application itself is based on an RCP-Eclipse-Environment (Rich-Client-Platform) which offers a huge flexibility in configuration and extensibility becaus...
Tags: Bio7, integrated, development, environment, ecological, modeling, scientific, image, analysis, statistical, analysis
1545 days ago
