PhyloGrapher - Graph Visualization Tool
PhyloGrapher is a program designed to visualize and study evolutionary relatio...ilies of homologous genes or proteins (elements).PhyloGrapher is a drawing tool that generates custom graphs...2944 days ago
QUAST: quality assessment tool for genome assemblies
QUAST evaluates genome assemblies. For metagenomes, please see MetaQUAST project.It can works both with and without a given reference genome.The tool accepts multiple assemblies,...2944 days ago
REAPR: a universal tool for genome assembly evaluation
REAPR is a tool that evaluates the accuracy of a genome assembly using mapped paired end rea...n order to score each base of the assembly. http://www.sanger.ac.uk/science/tools/reapr2944 days ago
2936 days ago
Trimmomatic: A flexible read trimming tool for Illumina NGS data
Paired End: java -jar trimmomatic-0.35.jar PE -phred33 input_forward.fq.gz input_reverse.fq.gz output_forward_paired.fq.gz output_forward_unpaired.fq.gz output_revers...2936 days ago
HOMER: Software for motif discovery and next-gen sequencing analysis
...s important to know before diving head first into more advanced analysis tools such as HOMER. Setting u...sequence manipulation Mapping reads to a reference genome Manipulating SAM/BAM alignment files Visualizi...2925 days ago
mrFAST: Micro Read Fast Alignment Search Tool
mrFAST is a read mapper that is designed to map short reads to reference genome with a special emphasis on the discovery of structural variation and segmental duplicat...2925 days ago
Smash: An alignment-free method to find and visualise rearrangements between pairs of DNA sequences
Smash is a completely alignment-free method/tool to find and visualise genomic rearrangements. The detection is based on conditional exclusive compression, namely using a FCM (Markov m...2925 days ago
RASTtk : algorithm for building custom annotation pipelines and annotating batches of genomes
The RAST (Rapid Annotation using Subsystem Technology) a...cently, in order to make RAST a more useful research tool and to keep pace with advance...and extensible. In this paper, we describe the RAST tool kit (RASTtk), a modular versi...2924 days ago
YASS :: genomic similarity search tool
YASS is a genomic similarity search tool, for nucleic (DNA/RNA) sequences in fasta or p...most of the heuristic pairwise local alignment tools for DNA sequences (FASTA, BL...them to local alignments. This genomic search tool uses multiple transition cons...2919 days ago