What is a .gvf file

If Windows recognizes the filename extension, it opens the file in the program that is associated with that filename extension. When Windows does not recognize a filename extension, you receive the following message:.

Windows cannot open this file: example. If you don't know how to set the. Changing the filename extension of a file is not a good idea. Did your computer fail to open a GVF file? We explain what they are used for and recommend software that we know can open or otherwise handle your. GVF files. The GVF file extension indicates to your device which app can open the file. However, different programs may use the GVF file type for different types of data. While we do not yet describe the GVF file format and its common uses, we do know which programs are known to open these files, as we receive dozens of suggestions from users like yourself every day about specific file types and which programs they use to open them.

Add comment. Various data file type. The GVF format was published in Reese et al. Sequence Ontology Tools. Sequence Ontology Tools is a set of programs useful for working with Sequence Ontology data and other biomedical ontologies.

Programs supporting the exension gvf on the main platforms Windows, Mac, Linux or mobile. Click on the link to get more information about Sequence Ontology Tools for view gvf file action. The following is a simplified segment of a gVCF file, describing a segment of non-variant calls starting with an A on chromosome 1 from position to Any field provided for a block of sites, such as read depth using the DP key , shows the minimum value that is observed among all sites encompassed by the block.

This range restriction applies to each of the sample values printed in the final block record. The described modifications reflect the notion that the site confidence is bound within the enclosing indel confidence. On occasion, the variant caller produces multiple overlapping indel calls that cannot be resolved into two haplotypes. If this case, all indels and sites in the region of the overlap are marked with the IndelConflict filter. The gVCF file uses an adapted version of genotype quality for variant and non-variant site filtration.

This value is associated with the key GQX. The reason for using this value is to allow a single value to be used as the primary quality filter for both variant and non-variant sites.

Filtering on this value corresponds to a conservative assumption appropriate for applications where reference genotype calls must be determined at the same stringency as variant genotypes, i. Toggle navigation.

Articles gVCF files. When to use it Use it for direct interpretation or as a starting point for tertiary analysis with downstream analysis that is compatible with gVCF, such as tabix and IGV.

When not to use it Do not use it with tools that are not compatible with the gVCF format. How to use it Apps that use gVCF files find it when kicked off and directed to the sample.

Samples per file There is only one sample per gVCF file.