diff --git a/README.md b/README.md new file mode 100644 index 0000000000000000000000000000000000000000..493a9ea8342b79db563fbe4b9581d506344dd8d7 --- /dev/null +++ b/README.md @@ -0,0 +1,99 @@ +# Please add a valid title for your ArcInvestigation +### Please add a valid description to your ArcInvestigation + +## Table of Contents + + + 1. Studies + + + + 2. Assays + + - [RNAseq_raw_data](#assay--rnaseq_raw_data) + - [FASTQC](#assay--fastqc) + +## Graphical overview + +```mermaid +--- +title: Effects_of_Ppd-H1_and_High_Ambient_Temperatures_in_Barley +--- +flowchart TD + classDef investigationStyle fill:#6c7885,color:#2d3e50,fontWeight:bold; + classDef studyStyle fill:#62d4c1,color:#2d3e50,fontWeight:bold; + classDef assayStyle fill:#ffd34d,color:#2d3e50,fontWeight:bold; + classDef processStyle fill:#D46275,color:#2d3e50; + id_0["<no-title>"] + class id_0 investigationStyle; + id_0-->STUDY_id_1 + class STUDY_id_1 studyStyle; + subgraph STUDY_id_1[Study: RNAseq_analysis] + end + subgraph ASSAY_id_2[Assay: Salmon_quantification] + end + class ASSAY_id_2 assayStyle; + subgraph ASSAY_id_3[Assay: RNAseq_analysis_of_MSA] + end + class ASSAY_id_3 assayStyle; + subgraph ASSAY_id_4[Assay: RNAseq_raw_data] + id_5[NewTable0] + class id_5 processStyle; + end + class ASSAY_id_4 assayStyle; + subgraph ASSAY_id_6[Assay: RNAseq_analysis_of_leaf] + end + class ASSAY_id_6 assayStyle; + subgraph ASSAY_id_7[Assay: FASTQC] + id_5[NewTable0] + class id_5 processStyle; + end + class ASSAY_id_7 assayStyle; + id_5-->|1|id_5 + id_5-->|389|id_8 + id_8-->|1|id_5 + id_8-->|1|id_8 + +``` + +### Additional details +| Meta Data | Description | +| --------- | ----------- | +| Submission Date | tba | +| Public Release Date | tba | +| Study identifiers | RNAseq_analysis | +| Study Count | 1 | +| Assay identifiers | Salmon_quantification , RNAseq_analysis_of_MSA , RNAseq_raw_data , RNAseq_analysis_of_leaf , FASTQC | +| Assay Count | 5 | + + + + +## Assay: _RNAseq_raw_data_ +### Additional details +| Meta Data | Description | +| --------- | ----------- | +| Measurement Type | RNA-Seq | +| Technology Type | Illumina NovaSeq 6000 | +| Table Count | 1 | +| Table Names | NewTable0 | +| Sample Count | 406 | +| Data File Count | 406 | +| Associated studies | | +### Annotation headers + +**Parameters**: [library strategy](http://purl.org/nfdi4plants/ontology/dpbo/DPBO_0000035),[library preparation kit](http://purl.obolibrary.org/obo/GENEPIO_0000085),[library preparation kit version](http://purl.obolibrary.org/obo/GENEPIO_0000149),[adapter sequence](http://purl.obolibrary.org/obo/GENEPIO_0000083),[next generation sequencing instrument model](http://purl.org/nfdi4plants/ontology/dpbo/DPBO_0000040),[base-calling software](http://purl.org/nfdi4plants/ontology/dpbo/DPBO_0000017),[base-calling software version](http://purl.org/nfdi4plants/ontology/dpbo/DPBO_0000018),[base-calling software parameters](http://purl.org/nfdi4plants/ontology/dpbo/DPBO_0000019),[library strand](http://purl.org/nfdi4plants/ontology/dpbo/DPBO_0000020),[Raw data file format](http://purl.org/nfdi4plants/ontology/dpbo/DPBO_0000021) + +## Assay: _FASTQC_ +### Additional details +| Meta Data | Description | +| --------- | ----------- | +| Technology Type | FASTQC | +| Table Count | 1 | +| Table Names | NewTable0 | +| Sample Count | 840 | +| Data File Count | 0 | +| Associated studies | | +### Annotation headers + +**Characteristics**: [Format](https://bioregistry.io/NCIT:C42761)