Search
Product
About us
Contact
Blog

FAIRsharing.78make; Last edited: Jan. 8, 2019, 1:34 p.m.; Last accessed: Jan 03 2022 7:10 p.m.

Other names: bigMaf

Names

More detailed information about this field from each metasource.

Big Multiple Alignment Format

metasource: Fairsharing.org
version: FAIRsharing.org: bigMaf; Big Multiple Alignment Format; DOI: https://doi.org/10.25504/FAIRsharing.78make; Last edited: Jan. 8, 2019, 1:34 p.m.; Last accessed: Jan 03 2022 7:10 p.m.

bigMaf

The bigMaf format stores multiple alignments in a format compatible with MAF files, which is then compressed and indexed as a bigBed. The bigMaf files are created using the program bedToBigBed, run with the -as option to pull in a special autoSql (.as) file that defines the fields of the bigMaf.

Description

More detailed information about this field from each metasource.

The bigMaf format stores multiple alignments in a format compatible with MAF files, which is then compressed and indexed as a bigBed. The bigMaf files are created using the program bedToBigBed, run with the -as option to pull in a special autoSql (.as) file that defines the fields of the bigMaf.

Webpage:

http://genome.ucsc.edu/goldenPath/help/bigMaf.html

Webpage

More detailed information about this field from each metasource.

http://genome.ucsc.edu/goldenPath/help/bigMaf.html

Tags:

Tags
More detailed information about this field from each metasource.

multiple sequence alignment
metasource: Fairsharing.org
version: FAIRsharing.org: bigMaf; Big Multiple Alignment Format; DOI: https://doi.org/10.25504/FAIRsharing.78make; Last edited: Jan. 8, 2019, 1:34 p.m.; Last accessed: Jan 03 2022 7:10 p.m.

multiple sequence alignment

More to explore:

1/20

Big Pattern Space Layout

The bigPsl format stores alignments between two sequences just as PSL files do; however, bigPsl files are compressed and indexed as bigBeds. PSL files are converted to bigPsl files using the program b ...

Big Chain

The bigChain format describes a pairwise alignment that allow gaps in both sequences simultaneously, just as chain files do; however, bigChain files are compressed and indexed as bigBeds. Chain files ...

Multiple Alignment Format

The Multiple Alignment Format stores DNA level multiple alignments in an easily readable format between entire genomes. Unlike previous formats this resource can cope with forward and reverse strand d ...

Big Browser Extensible Data Format

The bigBed format stores annotation items that can either be simple, or a linked collection of exons, much as BED files do. BigBed files are created initially from BED type files, using the program be ...

net alignment annotation Format

The net file format is used to describe the axtNet data that underlie the net alignment annotations in the Genome Browser.

Stockholm Multiple Alignment Format

The "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is us ...

Axt Alignment Format

Axt Alignment files are produced from Blastz, an alignment tool available from Webb Miller's lab at Penn State University. The axtNet and axtChain alignments are produced by processing the alignment f ...

BLAST-like Alignment Tool Format

BLAT is a multiple algorithms developed for the analysis and comparison of biological sequences such as DNA, RNA and proteins.

CLUSTAL-W Alignment Format

CLUSTAL-W Alignment Format is a simple text-based format, often with a *.aln file extension, used for the input and output of DNA or protein sequences into the Clustal suite of multiple alignment prog ...

Chain Format for pairwise alignment

The chain format describes a pairwise alignment that allow gaps in both sequences simultaneously. Each set of chain alignments starts with a header line, contains one or more alignment data lines, and ...

Multiple Alignment using Fast Fourier Transform

MAFFT (Multiple Alignment using Fast Fourier Transform) is a high speed multiple sequence alignment program which implements the Fast Fourier Transform (FFT) to optimise protein alignments based on th ...

Binary Alignment Map Format

BAM is the compressed binary version of the Sequence Alignment/Map (SAM) format, a compact and indexable representation of nucleotide sequence alignments. Many next-generation sequencing and analysis ...

Big Gene Prediction

The bigGenePred format stores annotation items that are a linked collection of exons, much as BED files indexed as bigBeds do. However, the bigGenePred format includes 8 additional fields that contain ...

bigWig Track Format

The bigWig format is for display of dense, continuous data that will be displayed in the Genome Browser as a graph. The bigWig files are in an indexed binary format. The main advantage of this format ...

Wiggle Track Format

The wiggle (WIG) format is an older format for display of dense, continuous data such as GC percent, probability scores, and transcriptome data. The bigWig format is the recommended format for almost ...

BEDgraph

The bedGraph format allows display of continuous-valued data in track format. This display type is useful for probability scores and transcriptome data. This track type is similar to the wiggle (WIG) ...

BAliBASE

BAliBASE; a benchmark alignment database, including enhancements for repeats, transmembrane sequences and circular permutations.

Sequence Alignment Map

The Sequence Alignment/Map (SAM) format is a TAB-delimited text format consisting of a header section, which is optional, and an alignment section.

HMMER Profile File Format

The profile hidden Markov Model (HMM) calculated from multiple sequence alignment data in this service is stored in Profile HMM save format (usually with ".hmm" extension). It is an ASCII file contain ...

Gene Prediction File Format

Gene Prediction File Format (genePred) is a table format commonly used for gene prediction tracks in the Genome Browser. Variations of genePred include standard format, extended format and a format wh ...

Previous Next

Need help integrating and/or managing biomedical data?

Follow our Twitter for updates

Service status

Reach us:
[email protected]

Data is amalgamated and only retrieved periodically.
Some of the resources used by the system:

® FAIRsharing.org
® Bioontology/Bioportal Terms
® Nucleic Acid Research - Database
® re3data.org
® bio.tools
® PubMed - Courtesy of the U.S. National Library of Medicine