Skip to content

Commit

Permalink
Update README.md
Browse files Browse the repository at this point in the history
Change links to reflect new location of files (in directory labeled mixs instead of release).
  • Loading branch information
ramonawalls authored Jul 5, 2022
1 parent e2913c8 commit b0a4b9c
Showing 1 changed file with 4 additions and 4 deletions.
8 changes: 4 additions & 4 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -10,17 +10,17 @@ Beginning with version 6, MIxS is being managed using the [LinkML toolkit](https

### How to access MIxS standards

The standards can be browsed at https://genomicsstandardsconsortium.github.io/mixs/. The latests stable version of the MIxS standard in various formatsdownloaded in machine readable formats from the [release](release) folder. MIxS is currently available in GraphQL, JSON-LD, JSON schema, OWL, prefixmap, protobuf, SCHACL, SHEX, SQL schema and Python. Java will be addde in a future release, as will Excel templates for data collection. There is currently only one version of MIxS released in this repository (MIxS 6). When newer versions are released, links to older versions will be provided here
The standards can be browsed at https://genomicsstandardsconsortium.github.io/mixs/. The latests stable version of the MIxS standard in various formatsdownloaded in machine readable formats from the [mixs](mixs) folder. MIxS is currently available in Excel, GraphQL, JSON-LD, JSON schema, OWL, prefixmap, protobuf, SCHACL, SHEX, SQL schema and Python. Java will be addde in a future release, as will template spreadsheets for data collection. There is currently only one version of MIxS released in this repository (MIxS 6). When newer versions are released, links to older versions will be provided here

To support existing implementers who have been using previous Excel-based versions of MIxS, we have provide a manually created [Excel workbook](release/excel) with the same format as MIxS 5. However, we highly recommend using one of the machine readable artifacts available in the [release](release) folder.
To support existing implementers who have been using previous Excel-based versions of MIxS, we have provide a manually created [Excel workbook](mixs/excel) with the same format as MIxS 5. However, we highly recommend using one of the machine readable artifacts available in the [mixs](mixs) folder.

MIxS is divided into checklists and packages.

**[Checklists](https://genomicsstandardsconsortium.github.io/mixs/#checklists)** include the require, recommended, and optional metadata fields for a specific type sequence: genome, metagenome, marker gene, or xxx. For genomic sequences (MIGS), there are checklists for specific taxa (Eukaryotes, Bacteria, Viruses, and Plants as hosts).
**[Checklists](https://genomicsstandardsconsortium.github.io/mixs/#checklists)** include the required, recommended, and optional metadata fields for a specific type sequence: genome, metagenome, marker gene, etc. For genomic sequences (MIGS), there are checklists for specific taxa (Eukaryotes, Bacteria, Viruses, and Plants as hosts).

**[Packages](https://genomicsstandardsconsortium.github.io/mixs/#packages)** supplement checklists by providing additional terms to describe specific environements in which a sample was collected. For example, the Agriculture package has a number of terms to describe agricultural environments.

Packages can be used in conjunction with any checklist, so, for example, you if you sequence metagenome with in an agricultural environment, you would use MIMS + the Agriculture packages. All possible [combinations](https://genomicsstandardsconsortium.github.io/mixs/#combinations) of checklists and packages are available on the web browser.
Packages can be used in conjunction with any checklist, so, for example, you if you sequence metagenome with in an agricultural environment, you would use MIMS + the Agriculture packages. All possible [combinations](https://genomicsstandardsconsortium.github.io/mixs/#combinations) of checklists and packages are available on the web browser. Combinations are not currently available via this repository, because they must be generated manually. Once code is in place to generate Excel sheets for checklists and packages, we will offer combintation for download.


**To request changes to the MIxS standards, please use the [issue tracker](https://github.com/GenomicsStandardsConsortium/mixs/issues) in this repo.**
Expand Down

0 comments on commit b0a4b9c

Please sign in to comment.