diff --git a/README.md b/README.md deleted file mode 100644 index 493a9ea8342b79db563fbe4b9581d506344dd8d7..0000000000000000000000000000000000000000 --- a/README.md +++ /dev/null @@ -1,99 +0,0 @@ -# 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)