Added information to the genetic maps section

_data/toc.yml

@@ -30,6 +30,15 @@
           url: "docs/curation/genotypic-data/genotypic-data-importer"
         - title: "VCF File Management"
           url: "docs/curation/genotypic-data/vcf-management"
+        - title: "Data Storage Model"
+          url: "docs/curation/genotypic-data/data-storage-model"
     - title: "Genetic Maps"
       url: "docs/curation/genetic-maps"
+      children:
+        - title: "MSTmap Importer"
+          url: "docs/curation/genetic-maps/mstmap-importer"
+        - title: "QTL Importer"
+          url: "docs/curation/genetic-maps/qtl-importer"
+        - title: "Data Storage Model"
+          url: "docs/curation/genetic-maps/data-storage-model"
 

_docs/curation/genetic-maps.md

@@ -0,0 +1,17 @@
+---
+title: Genetic Maps
+tags:
+  - genetic map
+description: This is documentation pertaining to curation and management of genetic map and QTL data within TripalCultivate.
+---
+# Genetic Maps
+A genetic map is produced to localize various desirable traits to a region of the genome. Quantitative trait loci (QTL) are identified by looking for statistical significance between a specific trait (phenotypic data) and genotypic data. The purpose of this module is to facilitate import of both genetic maps and QTLs into the Chado database, with the end goal of allowing users to visualize the linkage groups of a genetic map and to compare maps that share the same markers using the Tripal Map tool.
+
+## [MSTMap Importer](genetic-maps/mstmap-importer)
+This importer will load genetic maps which follow the same format output by the [MSTMap software](http://alumni.cs.ucr.edu/~yonghui/mstmap.html). Since the output from MSTMap is very simple and straightforward, it is also easy to convert formats output from different mapping software into the format needed by this importer. The importer also makes it easy to associate any metadata regarding a map, such as information regarding the population used and the methodology.
+
+## [QTL Importer](genetic-maps/qtl-importer)
+This importer will load quantitative trait loci (QTL) and associate them with a pre-existing map and phenotypic trait. Due to a lack of standards set by the biological community, this importer takes a customaized format as input, which aims to capture as much information as possible. This includes the peak marker, position and LOD score, any phenotypic variance explained by the QTL, and confidence intervals if applicable.
+
+## [Data Storage Model](genetic-maps/data-storage-model)
+This section focusses on how genetic map data are stored at the database level. Data curators may find this information helpful when checking what connections between data are being made or if already imported data need to be modified in the database.

_docs/curation/genetic-maps/data-storage-model.md

@@ -0,0 +1,9 @@
+---
+title: Data Storage Model
+tags:
+  - genetic map
+  - QTL
+  - data storage
+  - importers
+description: This is documentation pertaining to how genetic map data and QTLs are stored in the Chado database.
+---

_docs/curation/genetic-maps/mstmap-importer.md

@@ -0,0 +1,8 @@
+---
+title: MSTmap Importer
+tags:
+  - genetic map
+  - genetic marker
+  - importers
+description: This is documentation pertaining to the import of genetic maps in the format that is output by MSTmap software.
+---

_docs/curation/genetic-maps/qtl-importer.md

@@ -0,0 +1,8 @@
+---
+title: QTL Importer
+tags:
+  - genetic map
+  - QTL
+  - importers
+description: This is documentation pertaining to the import of quantitative trait loci (QTL).
+---

_docs/curation/genotypic-data.md

@@ -14,3 +14,5 @@ The genotypic data importer accommodates genotypic data stored in the variant ca
 ## [VCF File Management](genotypic-data/vcf-management)
 This functionality provides a means of uploading variant call format (VCF) files so that users can access pertinent metadata, filter and convert genotypic data to a format that suits their needs. This can be useful when a genotypic dataset is not ready for import into the database and multiple researchers will be using it for their projects. A researcher may also require access to the data in a specific format required by analysis software. The curator will have the ability to control user access, include the methods that generated the dataset, generate statistical summaries, and specify which conversions to other file formats are appropriate to that dataset.
 
+## [Data Storage Model](genotypic-data/data-storage-model)
+This section focusses on how genotypic data are stored at the database level. Data curators may find this information helpful when checking what connections between data are being made or if data needs to be modified at the database level.

_docs/curation/genotypic-data/data-storage-model.md

@@ -0,0 +1,8 @@
+---
+title: Data Storage Model
+tags:
+  - genotype
+  - data storage
+  - importers
+description: This is documentation pertaining to how genotypic data are stored in the Chado database.
+---

_docs/curation/germplasm-data.md

@@ -19,4 +19,4 @@ The Germplasm Crosses Importer is used for germplasm samples that are developed
 The functionality in Germplasm Collections provides a way to curate germplasm that has a shared purpose for research. This can look like a diversity panel to test the performance of various germplasm in a particular environment, or a population derived from a single cross, such as a recombinant inbred line (RIL) population. The germplasm collection is then linked to a project in the database. A single germplasm can be curated into multiple collections, and a collection can be linked to multiple projects and vice versa.
 
 ## [Data Storage Model](germplasm-data/data-storage-model)
-This section focusses on how germplasm data is stored at the database level. Data curators may find this information helpful when checking what connections between data are being made or if something needs to be modified at the database level.
+This section focusses on how germplasm data are stored at the database level. Data curators may find this information helpful when checking what connections between data are being made or if data need to be modified in the database.

_docs/curation/germplasm-data/data-storage-model.md

@@ -2,8 +2,9 @@
 title: Data Storage Model
 tags:
   - germplasm
+  - data storage
   - importers
-description: This is documentation pertaining to how germplasm data is stored in the Chado database.
+description: This is documentation pertaining to how germplasm data are stored in the Chado database.
 ---
 
 ## Data Storage Model for Germplasm

_docs/curation/phenotypic-data/data-storage-model.md

@@ -2,6 +2,7 @@
 title: Data Storage Model
 tags:
   - phenotype
+  - data storage
   - importers
 description: This is documentation pertaining to how phenotypic data is stored in the Chado database.
 ---