Data · dataset · 2024
HG002 nanpore sequencing basecalled FASTQ
Listed in ScienceDB
Raw FAST5 files of HG002 for R9.4.1 data and R10.4.1 data from s3://ont-open-data/ gm24385_2020.11/ and s3://ont-open-data/giab_lsk114_2022.12 respectively.
Description
The basecalling of the R9.4.1 data was performed with Guppy 2.3.7, Guppy 4.2.2, and Guppy 6.3.8. The basecalling of the R10.4.1 data was performed by Dorado 0.4.3.The naming pattern follows this structure: R9 (flowcell type), G6 (Guppy 6 basecaller), FAST (FAST basecalling mode), and q8 (indicating that read quality values below 8 have been filtered).The HG002_R9_guppy_similarity.tar.gz consists of Guppy basecalling fastq of 10,000 randomly downsampled R9.4.1 fast5 reads.
Guppy2.3.7, Guppy3.6.1 (FAST, HAC), Guppy4.5.4 (FAST, HAC), Guppy5.1.16 (FAST, HAC, SUP), Guppy6.4.6 (FAST, HAC, SUP) were used for basecalling.
Links
Where it is published
- DOI doi.org/10.57760/sciencedb.16081 ↗
DOI / persistent id · from scidb cn
Catalogue records · 1
- OAI-PMH record scidb.cn/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=10.57760%2… ↗
metadata API · from scidb cn
Topics
- From keywords
- Earth & Environmental Science · Engineering · Humanities · Life Sciences · Social Science
- Inferred from text
- Bioinformatics and computational biology 68% · Sequencing 75%
Provenance · 1 source records, 11 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ScienceDB | 10.57760/sciencedb.16081 | 11 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| concepts[field].anzsrc:group:3102 | enrichment · scidb cn | taxonomy-embedding@1.0.0 | title+keywords+description (68%) |
| concepts[field].local:field:earth-environmental | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:engineering | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:humanities | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:social-science | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[modality].local:modality:sequencing | enrichment · scidb cn | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/description |
| license_text | source · scidb cn | connector:scidb_cn@1.0.0 | |
| publication_date | source · scidb cn | connector:scidb_cn@1.0.0 | |
| title | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/title |