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...s. Its speed extends the accessibility and utility of resources such as ENCODE, Roadmap Epigenomics,...2359 days ago
mojolicious: a next generation web framework for the Perl programming language.
Back in the early days of the web, many people learned Perl because of a wonderful Per...ile server, CGI/PSGI detection, first class Unicode support and much more for you...ire additional CPAN modules to be installed) Fresh code b...2357 days ago
2350 days ago
Alfred: BAM Statistics and Feature Counting
The easiest way to get Alfred is to download a statically linked binary from the Alfred github release page. Alternatively, you can build Alfred from source. Alfre...2346 days ago
HTTDB - Horizontally transferred transposable elements database
Transposons or Transposable elements (TEs) are "mobile genes" capable of mobilizatio...vents in all eukaryotes, allowing not only TE specialists to add new events and search the database, but also non-sp...2346 days ago
MGcV: the microbial genomic context viewer for comparative genome analysis
MGcV is an interactive web-based visalization tool tailored to facilitate...asting identifiers (one per line) or by using the gene ID search tool or with the BLAST search tool Click "Visualize co...2340 days ago
Circoletto: visualizing sequence similarity with Circos
...aesthetically pleasing and informative overview of sequence similarity search results. Online version and downloadable software package for offline use (source code in PERL) freely available at&nb...2329 days ago
Generate interactive codon usage plots
Generate interactive codon usage plots as used at ensembl.lepbase.org. The input file format can be generated from an Ensembl database using the export_json.pl script from the easy-import pipeline. live demo2310 days ago
PLAR: Pipeline for lncRNA annotation from RNA-seq data
Due to several requests, we are releasing an assingment of orthologs, determined using the same methods used...AST, Whole Genome Alignment (WGA), and synteny). One is comparing human GENCODE genes (from GENCODE v...901 days ago
Carefully opt for human reference genome
Heng Li posted several issues with the human reference genomes given in these resources and suggests the following compressed FASTA file to be used as hg38/GRCh38 human...1590 days ago