The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes
Open accessAbstract
GetOrganelle is a state-of-the-art toolkit to accurately assemble organelle genomes from whole genome sequencing data. It recruits organelle-associated reads using a modified “baiting and iterative mapping” approach, conducts de novo assembly, filters and disentangles the assembly graph, and produces all possible configurations of circular organelle genomes. For 50 published plant datasets, we are able to reassemble the circular plastomes from 47 datasets using GetOrganelle. GetOrganelle assemblies are more accurate than published and/or NOVOPlasty-reassembled plastomes as assessed by mapping. We also assemble complete mitochondrial genomes using GetOrganelle. GetOrganelle is freely released under a GPL-3 license ( https://github.com/Kinggerm/GetOrganelle ).
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Fast gapped-read alignment with Bowtie 2
Langmead, B., & Salzberg, S. L. (2012) · Nature Methods · doi:10.1038/nmeth.1923 · Cited by 56,400
BLAST+: architecture and applications
Camacho, C., Coulouris, G., Avagyan, V., Ma, N., Papadopoulos, J., Bealer, K., & Madden, T. L. (2009) · BMC Bioinformatics · doi:10.1186/1471-2105-10-421 · Cited by 22,074
CAP3: A DNA Sequence Assembly Program
Huang, X., & Madan, A. (1999) · Genome Research · doi:10.1101/gr.9.9.868 · Cited by 5,261
Cited by
PACVr: plastome assembly coverage visualization in R
Gruenstaeudl, M., & Jenke, N. (2020) · BMC Bioinformatics · doi:10.1186/s12859-020-3475-0 · Cited by 341
Plant organellar genomes: much done, much more to do
Wang, J., Kan, S., Liao, X., Zhou, J., Tembrock, L. R., Daniell, H., Jin, S., & Wu, Z. (2024) · Trends in Plant Science · doi:10.1016/j.tplants.2023.12.014 · Cited by 280
Plastid phylogenomic insights into relationships of all flowering plant families
Li, H.-T., Luo, Y., Gan, L., Ma, P.-F., Gao, L.-M., Yang, J.-B., Cai, J., Gitzendanner, M. A., Fritsch, P. W., Zhang, T., et al. (2021) · BMC Biology · doi:10.1186/s12915-021-01166-2 · Cited by 259
Self-citationGiants among Cnidaria: Large Nuclear Genomes and Rearranged Mitochondrial Genomes in Siphonophores
Ahuja, N., Cao, X., Schultz, D. T., Picciani, N., Lord, A., Shao, S., Jia, K., Burdick, D. R., Haddock, S. H. D., Li, Y., et al. (2024) · Genome Biology and Evolution · doi:10.1093/gbe/evae048 · Cited by 21
Ochiai, K. K., Hanawa, D., Ogawa, H. A., Tanaka, H., Uesaka, K., Edzuka, T., Shirae‐Kurabayashi, M., Toyoda, A., Itoh, T., & Goshima, G. (2024) · The Plant Journal · doi:10.1111/tpj.16764 · Cited by 13
Metadata
- Authors
- Jin, J.-J., Yu, W.-B., Yang, J.-B., Song, Y., dePamphilis, C. W., Yi, T.-S., & Li, D.-Z.
- Venue
- Genome Biology
- Published
- 2020-09-10
- Volume
- 21
- Issue
- 1
- Pages
- 241-241
- ISSN
- 1465-6906 (ISSN-L)
- 1474-760X
- OpenAlex
- W3084201551
- Cited by
- 3,991
- References
- 3
- FWCI
- 119.29
- Type
- journal article
- Language
- en
- Open access
- gold
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
How to cite
Cite CoChat for the checks on this page, and the paper for its own findings.
- This page
- CoChat. (2026). Citation check: GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes. https://app.cochat.ai/papers/10.1186/s13059-020-02154-5
- The paper
- Jin, J.-J., Yu, W.-B., Yang, J.-B., Song, Y., dePamphilis, C. W., Yi, T.-S., & Li, D.-Z. (2020). GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes. Genome Biology. https://doi.org/10.1186/s13059-020-02154-5
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
