Release for CMDGA v70.0

• Retired ES based region indexer
• Consortia page to display datasets & tools generated by consortiums
• Schematic to display embedding files - cloupe, matrix, features, barcodes and UMAP
• New layout & cosmetics

Release for CMDGA v60.0

• CMDGA functional genomics datasets for common metabolic diseases
• New datatypes 1. Single Cell Embeddings, Statistical Models, Gene Purturbations
• Tools 1. Single Cell Browser (cellxgene) 2. Gene Expression Profiling
• New layout & cosmetics

Release for DGA v59.0 (updated ESv5.4.0)

• Split indexer [primary indexer(index metadata), peak indexer(BED files), vis indexer (index files for biodalliance)

• Get time to index metadata, files, vis (separately)

• Indexer status (log indexing errors)

• reindexing the region indexer only failed annotation (bypass ones that fail)

• Currently indexing internal hits for annotation_type accessible chromatin, eQTL, target gene predictions & chromatin state
• annotation_category (required), annotation_type_category(or underlying_assay), portal_tissue (required), tissue_term_id (required), annotation_source (required), portal_usage(required) fields added to annotation schema

Next release To Do
Enable Metadata & file upload (interim use previous version for uploads)

Release for DGA v58.0 (ubuntu14)

• added HPAP, SRA to external indentifiers
• added file_format xls, txt, bedgraph, zippedFastqFolder
• addded output_type - TPM counts matrix,Raw count matrix, barcode info, normalized counts, median normalized counts, mean normalized counts , predicted genes, FDR cut rate, normalized signal of significant reads, sample index for fastq files
• changed donor age to type float
• new assay_term Capture-C
• new annotation_type target gene predictions, caQTL, histone modifications
• new access groups jesse-engreitz, patrick-ellinor
• added to file schema platforms_multiple_files, read_length_zip_files usually for single cell assays that have several hundreds of fastq files; these files are zipped into a single folder

Release for DGA v57.23 (ubuntu14)

• schema add GO term for antibody characterization & katalin-susztak lab-alias 1cdc9d0
• rest api - active & harmonized states,tissues 4ded191
• retire embedded epigenome browser (beta test) 79ca4f3

Release for DGA v57.2 (ubuntu14)

1. Indexer script now indexing annotation type - accessible chromatin, variant allelic effects, target gene prediction, binding sites, chromatin state & eQTL
2. file format ibed for CHiCAGO output files
3. BTO biosample ontology
4. ren-lab-internal access group
5. tsv file format file_format_file_extension tsv.gz
   e898183
6. HPAP bioproject
   4ffd7b2