Curated European animal data from the BOLD public dataset version 15-Aug-2025
Abstract
Curated using this pipeline release: https://github.com/bge-barcoding/bold-library-curation/releases/tag/v4.2 result_output.tsv.gz = Processed records in BCDM TSV format with additional columns from ranking.bold.db.gz = Processed records in SQL database format.logs.tar.gz = logs from analysis.family_databases_compressed.tar.gz = manual curation package for family (database file, PDF checklist, PDF & SVG phylogeny).bold_database_statistics.pdf = summary of dataset.
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BOLD Database Statistics Report Database: bold.db Mode: Full Analysis Generated: 2025-10-28 14:31:26
SUMMARY STATISTICS Total records: 2,493,906 Unique species: 87,758 Unique BINs: 95,586 Unique OTUs: 310,207 Records without BIN: 0 CURATION CATEGORIES Auto-curatable species: 20,526 Needs attention: 21,361 Manual intervention: 54,343 PROCESSING PERFORMANCE Total processing time: 3.6 minutes Peak memory usage: 422.9 MB Processing mode: Full dataset Database size: 12.91 GB Summary Statistics
A B C D E F BAGS Grade 0 10000 20000 30000 40000 Number of Species 7914 10263 9050 12030 45293 3208 BAGS Grade Distribution BAGS scoring summary: Grade A = Species has > 10 specimens in 1 BIN Grade B = Species has 3 - 10 specimens in 1 BIN Grade C = Species has > 1 BIN (BIN splitting) Grade D = Species has < 3 specimens in 1 BIN Grade E = BIN with > 1 species (BIN sharing) Grade F = other BAGS Grade Distribution
1234567 Rank 0.0 0.2 0.4 0.6 0.8 1.0 1.2 1.4 Number of Records 1e6 4037 367239 263187 1463462 188121 112424 95436 Rank Distribution Rank Categories Rank Distribution
0 2 4 6 8 10 12 14 16 Sumscore 0 100000 200000 300000 400000 500000 Number of Records 158 17443 125249 172659 135915 128140 101893 90510 58706 172808 462696 500751 337765 180419 8684 110 Sumscore Distribution (0-16) The sum of all passed criteria, out of a total of 16 criteria assessed for each record. A higher score indicates a record with better specimen data.
Fail 3.8% Pass 96.2% SPECIES_ID Fail 99.8% Pass 0.2% TYPE_SPECIMEN Fail 4.7% Pass 95.3% SEQ_QUALITY Fail 81.3% Pass 18.7% HAS_IMAGE Fail 41.3% Pass 58.7% ID_METHOD Fail 60.8% Pass 39.2% PUBLIC_VOUCHER Fail 27.8% Pass 72.2% INSTITUTION Fail 29.7% Pass 70.3% MUSEUM_ID Criteria Distribution (Pass/Fail) - Page 1
Fail 8.8% Pass 91.2% COUNTRY Fail 41.2% Pass 58.8% REGION Fail 61.2% Pass 38.8% SECTOR Fail 49.6% Pass 50.4% SITE Fail 18.8% Pass 81.2% COORD Fail 27.1% Pass 72.9% COLLECTORS Fail 24.8% Pass 75.2% COLLECTION_DATE Fail 59.6% Pass 40.4% IDENTIFIER Criteria Distribution (Pass/Fail) - Page 2
1234567 Best Rank ABCDEF BAGS Grade 252 6015 669 781 45 4 148 220 6274 1315 1720 205 23 506 173 6256 885 1391 164 2 179 127 3796 1858 3620 1141 127 1361 885 19337 3929 5892 1708 519 13023 54 242 207 779 268 1193 465 Species Distribution: BAGS Grade vs Best Rank 2.5 5.0 7.5 10.0 12.5 15.0 17.5 20.0 Proportion (%) The rank of the best specimen record within each species within each BAGS grade. Top left box indicates the number of species with a BAGS grade A which have a specimen of rank of 1 (= type specimens).
Auto-curatable 21.3% Needs attention 22.2% Manual intervention 56.5% Curation Categories Auto-curatable Needs attention Manual intervention 0 10000 20000 30000 40000 50000 Number of Species 20526 21361 54343 Species by Curation Category Curation Analysis Distribution of species which are possible to auto-curate, probably need attention and require manual intervention. Auto-curatable = BAGS grade A, B or D and specimen ranks 1, 2, or 3 Need attention = BAGS grade A, B or D and specimen ranks >=4 Manual intervention = BAGS grade C or E