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Compressed Reference-oriented Alignment Map (CRAM) is a compressed columnar file format for storing biological sequences aligned to a reference sequence, initially devised by Markus Hsi-Yang Fritz et al. [1] CRAM was designed to be an efficient reference-based alternative to the Sequence Alignment Map (SAM) and Binary Alignment Map (BAM) file ...
HTML Form format HTML 4.01 Specification since PDF 1.5; HTML 2.0 since 1.2 Forms Data Format (FDF) based on PDF, uses the same syntax and has essentially the same file structure, but is much simpler than PDF since the body of an FDF document consists of only one required object. Forms Data Format is defined in the PDF specification (since PDF 1.2).
In bioinformatics, the general feature format (gene-finding format, generic feature format, GFF) is a file format used for describing genes and other features of DNA, RNA and protein sequences. GFF Versions
PDF is a standard for encoding documents in an "as printed" form that is portable between systems. However, the suitability of a PDF file for archival preservation depends on options chosen when the PDF is created: most notably, whether to embed the necessary fonts for rendering the document; whether to use encryption; and whether to preserve additional information from the original document ...
The extensible NEXUS file format is widely used in bioinformatics.It stores information about taxa, morphological and molecular characters, distances, genetic codes, assumptions, sets, trees, etc. [1] Several popular phylogenetic programs such as PAUP*, [2] MrBayes, [3] Mesquite, [4] MacClade [5] and SplitsTree [6] use this format.
The BED (Browser Extensible Data) format is a text file format used to store genomic regions as coordinates and associated annotations. The data are presented in the form of columns separated by spaces or tabs. This format was developed during the Human Genome Project [1] and then adopted by other sequencing
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The Variant Call Format or VCF is a standard text file format used in bioinformatics for storing gene sequence or DNA sequence variations. The format was developed in 2010 for the 1000 Genomes Project and has since been used by other large-scale genotyping and DNA sequencing projects.