Seal: SEquence ALignment evaluation suite
Seal is a comprehensive sequencing simulation and alignment tool eval...: Reading a pre-existing reference genome from one or more FASTA files....y, generating an artificial reference genome based on input parameters (le...ate. Applying alignment tools to the genome a...2375 days ago
LRCstats: Long Read Correction Statistics
...y simulators (such as SimLoRD or PBSim) where the two-way alignments between the uncorrected long reads (uLR) and the corresponding sequences in the reference genome (Ref) are given in some sort of...2373 days ago
Alien_Hunter : prediction of putative Horizontal Gene Transfer (HGT) events
...if distributions and captures more reliably the local composition of a sequence compared to fixed-order met...format) can be automatically loaded into the freely available Artemis genome viewer....2370 days ago
GIGGLE: a search engine for large-scale integrated genome analysis
GIGGLE is a genomics search engine that identifies and ranks the significance of genomic loci shared between query features and thousands of genome i...2368 days ago
AliTV—interactive visualization of whole genome comparisons
AliTV, which provides interactive visualization of whole genome alignments. AliTV reads multiple whole genome alignments or automatically generates alignments from the provided data. Optional feature annot...2368 days ago
Dot, an interactive viewer for genome-genome comparison
Dot, an interactive dot plot viewer that allows genome scientists to visualize genome-genome alignments in order to evaluate new...commonly used software method for aligning genome assemblies. A quick script ca...on demand. Dot, an interactive viewer for genome-g...2363 days ago
2358 days ago
PGAP-X: Extension on pan-genome analysis pipeline
PGAP-X is a microbial comparative genomic analysis platform with graphic interface. Ser...onservative levels, and genetic variation from pan-genome sight. At the same time, anal...al result data from many other programs, including genome a...2354 days ago
HTTDB - Horizontally transferred transposable elements database
Transposons or Transposable elements (TEs) are "mobile genes" capable of m...eir capacity for transposition inside genomes, they can frequently transpo...ed by the unprecedented amount of new genomes available. Despite the recog...viral genomic fragment into the host genome....2354 days ago
RGFA: powerful and convenient handling of assembly graphs
RGFA, an implementation of the proposed GFA specification in Ruby. It allows the user...cal application of RGFA is the editing of a graph, to finish the assembly of a sequence, using information not availa...1628 days ago