Results for "multiple"
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GenomeMapper: Simultaneous alignment of short reads against multiple genomes
GenomeMapper is a short read mapping tool designed for accurate read alignments. It quickly aligns millions of reads either with ungapped or gapped alignments. It can be used to align against multiple genomes simulanteously or against a single reference. If you are unsure which one is the appropr...Tags: GenomeMapper, Simultaneous, alignment, short, reads, multiple, genomes
2170 days ago
- GRSR is a Tool for Deriving Genome Rearrangement Scenarios for Multiple Uni-chromosomal Genomes. This tool will do the following steps: Step 1. Run mugsy to get multiple sequence alignment results. Step 2 & 3. Extraction of the Coordinates of Core Blocks, Construction of Synteny Blocks an...
Tags: GRSR, tool, genome, rearrangement, scenarios, multiple, unichromosomal, genome, sequences
2044 days ago
ANItools web: a web tool for fast genome comparison within multiple bacterial strains
ANItools is a software package written by PERL scripts that can be run in a Linux/Unix system. If you want to compare bacterial genomes and calculate their average nucleotide identity (ANI), you could download and run this program directly. Or you could send us the genome sequence by email. Then ...Tags: ANItools, web, tool, fast, genome, comparison, multiple, bacterial, strains
1997 days ago
FGENESH - Program for predicting multiple genes in genomic DNA sequences
FGENESH is the fastest (50-100 times faster than GenScan) and most accurate gene finder available - see the figure and the table below. In recent rice genome sequencing projects, it was cited "the most successful (gene finding) program (Yu et al. (2002) Science 296:79) and was used to produc...Tags: FGENESH, Program, predicting, multiple, genes, genomic, DNA, sequences
1960 days ago
MSAProbs - Parallel and accurate multiple sequence alignment
MSAProbs is a well-established state-of-the-art multiple sequence alignment algorithm for protein sequences. The design of MSAProbs is based on a combination of pair hidden Markov models and partition functions to calculate posterior probabilities. Assessed using the popular benchmarks: BAli...Tags: MSAProbs, Parallel, accurate, multiple, sequence, alignment
1759 days ago
Cactus: a reference-free whole-genome multiple alignment program
Cactus is a reference-free whole-genome multiple alignment program. The principal algorithms are described here: https://doi.org/10.1101/gr.123356.111 Cactus uses substantial resources. For primate-sized genomes (3 gigabases each), you should expect Cactus to use approximately 120 CPU-days ...Tags: Cactus, reference-free, whole-genome, multiple, alignment, program
1726 days ago
- Chromosome-level genome assembler combining multiple de novo assemblies https://github.com/jkimlab/IMAP
Tags: Integrative, Meta-Assembly, Pipeline, IMAP, Chromosome-level, genome, assembler, multiple, de novo, assemblies
1707 days ago
Kalign: fast multiple sequence alignment program for biological sequences.
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 -i BB11001.tfa -f clu -o out.clu Re-align seq...Tags: Kalign, fast, multiple, sequence, alignment, biological, sequences
1645 days ago
Sequence Tube Maps: displays multiple genomic sequences in the form of a tube map
A JavaScript module for the visualization of genomic sequence graphs. It automatically generates a "tube map"-like visualization of sequence graphs which have been created with vg. (https://github.com/vgteam/vg) Link to working demo: https://vgteam.github.io/sequenceTubeMap/Tags: Sequence, Tube, Maps, displays, multiple, genomic, sequences, tube, map, graphmap
1514 days ago
Caretta – A multiple protein structure alignment and feature extraction suite
Caretta – a multiple protein structure alignment and feature extraction suite Caretta, a multiple structure alignment suite meant for homologous but sequentially divergent protein families which consistently returns accurate alignments with a higher coverage than current state-of-the-...Tags: Caretta, multiple, protein, structure, alignment, feature, extraction, suite
1232 days ago
