Results for "analysis"
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This project contains scripts and tutorials on how to assemble individual microbial genomes from metagenomes, as described in: Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomesMads Albertsen, Philip Hugenholtz, Adam Skarshewski, Gene ...Tags: Bioinformatics, Analysis, Assembly, Genome, Reads, Multi-genome
2613 days ago
Prokka: tool for the rapid annotation of prokaryotic genomes
Prokka is a software tool for the rapid annotation of prokaryotic genomes. A typical 4 Mbp genome can be fully annotated in less than 10 minutes on a quad-core computer, and scales well to 32 core SMP systems. It produces GFF3, GBK and SQN files that are ready for editing in Sequin and ultimately...Tags: Bioinformatics, Analysis, Assembly, Genome, Annotation, Prokaryotes
2611 days ago
- MaxBin is software for binning assembled metagenomic sequences based on an Expectation-Maximization algorithm. Users can understand the underlying bins (genomes) of the microbes in their metagenomes by simply providing assembled metagenomic sequences and the reads coverage information or sequenci...
Tags: Bioinformatics, Analysis, Assembly, Genome, Bin, Binning, Metagenomics
2611 days ago
CONCOCT: Clustering cONtigs with COverage and ComposiTion
A program for unsupervised binning of metagenomic contigs by using nucleotide composition, coverage data in multiple samples and linkage data from paired end reads. Warning! This software is to be considered under development. Functionality and the user interface may still change significantly f...Tags: Bioinformatics, Analysis, Assembly, Genome, CONCOCT, Binning, Bin, NGS
2611 days ago
- With PhenoGram researchers can create chomosomal ideograms annotated with lines in color at specific base-pair locations, or colored base-pair to base-pair regions, with or without other annotation. PhenoGram allows for annotation of chromosomal locations and/or regions with shapes in different c...
Tags: Bioinformatics, Analysis, Assembly, Genome, Chromosome, Plot, Phenome
2609 days ago
- COCACOLA is a general framework that combines different types of information: sequence COmposition, CoverAge across multiple samples, CO-alignment to reference genomes and paired-end reads LinkAge to automatically bin contigs into OTUs. Furthermore, COCACOLA seamlessly embraces customized prior k...
Tags: Bioinformatics, Analysis, Assembly, Genome, COCACOLA, MetaGenomics, Contamination
2609 days ago
GroopM: Metagenomic binning toolset
GroopM is a metagenomic binning toolset. It leverages spatio-temoraldynamics (differential coverage) to accurately (and almost automatically)extract population genomes from multi-sample metagenomic datasets. GroopM is largely parameter-free. Use: groopm -h for more info. For installation and us...Tags: Bioinformatics, Analysis, Assembly, Genome, GroopM, Metagenome, Binning
2609 days ago
SeqMule: Automated human exome/genome variants detection
SeqMule takes single-end or paird-end FASTQ or BAM files, generates a script consisting of more than 10 popular alignment, analysis tools and runs the script line by line. Users can change the pipeline or fine-tune the parameters by modifying its configuration file. SeqMule also has some built-in...Tags: Bioinformatics, Analysis, Assembly, Genome, SeqMule, Exome, Structure, Variation
2609 days ago
- SequenceServer lets you rapidly set up a BLAST+ server with an intuitive user interface for use locally or over the web. More at http://sequenceserver.com.
Tags: Bioinformatics, Analysis, BLAST, sequenceserver
2606 days ago
- This project contains scripts and tutorials on how to assemble individual microbial genomes from metagenomes, as described in: Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes Mads Albertsen, Philip Hugenholtz, Adam Skarshewski, Gen...
Tags: Bioinformatics, Analysis, Assembly, Genome, Multigenome, Metagenome, Filter
2603 days ago
