Publicly available datasets
This issue should contain a list of publicly available datasets which include SR (Illumina) and LR (ONT), ideally the signal data (a.k.a. FAST5) data.
Designs
Relates to
- #57Analyses
- #60Manuscript - initial version
- #62The bright future
- #88The bright future
- #89The bright future
Activity
changed milestone to %Stretch goal
added Analysis label
marked the checklist item Zymo mock community: https://www.ebi.ac.uk/ena/data/view/SAMEA5065621 (ONT), https://www.ebi.ac.uk/ena/data/view/SAMEA5157164 (CS Even), and https://www.ebi.ac.uk/ena/data/view/SAMEA5138305 (CS log); SR and LR from different sample as completed
marked this issue as related to #57 (closed)
marked this issue as related to #60 (closed)
mentioned in issue #62 (closed)
marked this issue as related to #62 (closed)
Dataset "Ganges river"
- SR and LR for same sample
- ENA sample, ENA project
- preprint
NOT USED
- no assembly in original study/paper
- issues w/
flye
-
Dataset "Human saliva metagenome"
- ENA link
- SR and LR for same sample
NOT USED
- Only has FASTQ for ONT data
-
Dataset "Zymo mock community"
- SR and LR from different sample (not part of the "Stretch goal" but a must)
- ONT
- CS Even
- CS log
- Samuel M. Nicholls et al.
USED
Edited by Valentina Galata -
-
-
Dataset "Moss"
- Human fecal metagenome (Moss et al.)
- LR, FAST5 request: pending reply
- SR:
mnt/isilon/projects/ecosystem_biology/ONT/external_data/eli/sr/
Edited by Valentina Galata -
Dataset "Rumen"
- paper
-
paper
-
10572_0012: LR and SR data
-
- ENA
-
PRJEB21624
-
10572_0012:SAMEA104153971- SR data only ???
-
-
PRJEB31266
- No
10572_0012
- No
-
PRJEB21624
-
Dataset "NWC"
Natural whey starter cultures (NWCs) are used in cheese production and represent low-complexity microbiomes.- paper
-
ENA project SAMN09580370
- ENA runs incl. Illumina, MinION and PacBio reads
Edited by Valentina Galata marked this issue as related to #88 (closed)
marked this issue as related to #89 (closed)
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