categories

applications/science/biology

Showing entries 1-100 out of 109.

Program for analysing NGS data
Advanced normalization toolkit for medical image registration and other processing
Detects tRNA, mtRNA, and tmRNA genes in nucleotide sequences
Tool for estimating an unrooted species tree given a set of unrooted gene trees
Detecting natural selection from population-based genetic data
Tools for manipulating BCF2/VCF/gVCF format, SNP and short indel sequence variants
Suite of tools for addressing questions arising in genomics studies
A powerful toolset for genome arithmetic
A bundle of scripts for using Bio-Formats on the command line with bioformats_package.jar already …
Basic Local Alignment Search Tool (BLAST) finds regions of similarity between biological sequences
An ultrafast memory-efficient short read aligner
An ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences
A software package for mapping low-divergent sequences against a large reference genome, such as t…
Clustering and comparing protein or nucleotide sequences
General purpose multiple sequence alignment program for protein and DNA/RNA
Computational Morphometry Toolkit
More command-line utilities for working with MINC files
DICOM to NIfTI converter
Tools for exploring deep DNA sequencing data
Structural variant caller for mapped DNA sequenced data
Accelerated BLAST compatible local sequence aligner
Calculate the most likely secondary structure assignment given the 3D structure of a protein
Electronic PCR software tool
Fast genome-wide functional annotation through orthology assignment
The European Molecular Biology Open Software Suite
Estimate the unfolded site frequency spectrum and ancestral states
Generic tool for sequence alignment
Collection of Perl and shell scripts for processing MINC files
Ultra-fast all-in-one FASTQ preprocessor
FEBio Suite Solver
Library and command line interface for interacting with a Flywheel site
Bayesian haplotype-based polymorphism discovery and genotyping
A wide variety of tools with a primary focus on variant discovery and genotyping
Ultra-fast computation of genome mappability
Graph based aligner
Biosequence analysis using profile hidden Markov models
A visualization tool for interactive exploration of genomic datasets
Program to normalize intensity of MINC files
Efficient and versatile phylogenomic software by maximum likelihood
Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi …
InterViews graphical library for Neuron
Program for quantifying abundances of transcripts from RNA-Seq data
UCSC Genome Bioinformatics Group's suite of biological analysis tools, i.e. the kent utilities
K-mer substring space decomposition
Genomic sequence aligner
Multiple alignment of coding sequences
Multiple alignment program for amino acid or nucleotide sequences
Structural variant caller
An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bru…
Motif-based sequence analysis tools
An evolutionary simulation framework
Estimates population size, migration, population splitting parameters using genetic/genomic data
Command-line utilities for working with MINC files
Collection of Perl and shell scripts for processing MINC files
Short read genome assembler
A versatile pairwise aligner for genomic and spliced nucleotide sequences
Tools for automated registration using the MINC image format
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
Bayesian Inference of Phylogeny
Suite of tools for diffusion imaging
A multiple sequence alignment method with reduced time and space complexity
MRI non-uniformity correction for MINC files
Simulation environment for empirically-based simulations of neurons and networks of neurons
Simulation environment for empirically-based simulations of neurons and networks of neurons
Simulation environment for empirically-based simulations of neurons and networks of neurons
Simulation environment for empirically-based simulations of neurons and networks of neurons
Simulation environment for empirically-based simulations of neurons and networks of neurons
Simulation environment for empirically-based simulations of neurons and networks of neurons
Simulation environment for empirically-based simulations of neurons and networks of neurons
Medical image registration software
Software for medical image segmentation, bias field correction, and cortical thickness calculation
Management of analyses and data in DNA metabarcoding
Bayesian haplotype-based mutation calling
Phylogenetic Analysis by Maximum Likelihood (PAML)
Tools for high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF
The Platypus variant caller
A comprehensive update to the PLINK association analysis toolset
Fast, reliable protein-coding gene prediction for prokaryotic genomes
a toolkit for working with nanopore sequencing data from Oxford Nanopore
Model-based Analysis for ChIP-Seq
Evaluates genome assemblies by computing various metrics
A tool for Phylogenetic Analysis and Post-Analysis of Large Phylogenies
A tool for Phylogenetic Analysis and Post-Analysis of Large Phylogenies
Tool to retrieve approximate repeats from large DNA sequences
SAM/BAM processing tool
Tool for marking duplicates and extracting discordant/split reads from SAM/BAM files
Tools for manipulating SAM/BAM/CRAM format
Tools for manipulating SAM/BAM/CRAM format
GUI for molecular phylogeny
Genetic variant annotation and effect prediction toolbox
Identify single nucleotide positions that are different between tumor and normal
Tools for filtering, mapping, and OTU-picking from shotgun genomics data
St. Petersburg genome assembler: assembly toolkit containing various assembly pipelines
Software pipeline for building loci from short-read sequences
Spliced Transcripts Alignment to a Reference
Germline and small variant caller
High-performance read alignment, quantification and mutation discovery
Fast and exact comparison and clustering of sequences
Fast and exact comparison and clustering of sequences
Fast and exact comparison and clustering of sequences