Gregory D. Edgecombe, Liam M. Crowley, Lauren Hughes, Darwin Tree of Life Barcoding Collective, Tree of Life Core Informatics collective
Abstract
Authors
Institutions
Provenance
crossref
No local reference links have been materialized yet.
No local citing links have been materialized yet.
MitoFinder: efficient automated large-scale extraction of mitogenomic data in target enrichment phylogenomics.
10.1111/1755-0998.13160 · 2020
Basic Local Alignment Search Tool.
10.1016/s0022-2836(05)80360-2 · 1990
Key to the identification of British centipedes. Field Studies Council
2008
Atlas of the centipedes of Britain and Ireland.
2022
UniProt: the Universal Protein Knowledgebase in 2023.
10.1093/nar/gkac1052 · 2023
DNA barcoding SOPs for the Darwin Tree of Life project.
10.17504/protocols.io.261ged91jv47/v1 · 2023
Drost HG: Sensitive protein alignments at Tree-of-Life scale using DIAMOND.
10.1038/s41592-021-01101-x · 2021
Genomes on a Tree (GoaT): a versatile, scalable search engine for genomic and sequencing project metadata across the eukaryotic Tree of Life [version 1; peer review: 2 approved].
10.12688/wellcomeopenres.18658.1 · 2023
BlobToolKit – interactive quality assessment of genome assemblies.
10.1534/g3.119.400908 · 2020
Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm.
Confidence 100%
europepmc
Confidence 96%
openalex
Confidence 95%
unpaywall
Confidence 95%
doaj
Confidence 92%
datacite
Confidence 0%
10.1038/s41592-020-01056-5 · 2021
Haplotype-resolved assembly of diploid genomes without parental data.
10.1038/s41587-022-01261-x · 2022
The first myriapod genome sequence reveals conservative arthropod gene content and genome organisation in the centipede Strigamia maritima.
10.1371/journal.pbio.1002005 · 2014
MetaInvert: a new soil invertebrate genome resource provides insights into below-ground biodiversity and evolution.
10.21203/rs.3.rs-2706746/v1 · 2023
A sampling strategy for genome sequencing the British terrestrial arthropod fauna [version 1; peer review: 2 approved].
10.12688/wellcomeopenres.18925.1 · 2023
Twelve years of SAMtools and BCFtools.
10.1093/gigascience/giab008 · 2021
Sanger Tree of Life sample homogenisation: PowerMash.
10.17504/protocols.io.5qpvo3r19v4o/v1
Sanger Tree of Life wet laboratory protocol collection V.1.
10.17504/protocols.io.8epv5xxy6g1b/v1
Nextflow enables reproducible computational workflows.
10.1038/nbt.3820 · 2017
JBrowse 2: a modular genome browser with views of synteny and structural variation.
10.1186/s13059-023-02914-z · 2023
Sanger Tree of Life RNA extraction: automated MagMax ™ mirVana.
10.17504/protocols.io.6qpvr36n3vmk/v1 · 2023
Centipedes of the British Isles. Warne
1964
On the geographical distribution of Lithobius variegatus Leach, 184, and the identity of Lithobius rubriceps Newport, 1845 (Chilopoda: Lithobiomorpha).
10.1080/00222938600770031 · 1986
Natural History Museum Genome Acquisition Lab,; et al.: The genome sequence of the centipede Strigamia acuminata (Leach, 1816) [version 1; peer review: 3 approved].
10.12688/wellcomeopenres.19941.1 · 2023
MultiQC: summarize analysis results for multiple tools and samples in a single report.
10.1093/bioinformatics/btw354 · 2016
The nf-core framework for community-curated bioinformatics pipelines.
10.1038/s41587-020-0439-x · 2020
Gfastats: conversion, evaluation and manipulation of genome sequences using assembly graphs.
10.1093/bioinformatics/btac460 · 2022
Bioconda: sustainable and comprehensive software distribution for the life sciences.
10.1038/s41592-018-0046-7 · 2018
PretextView (Paired REad TEXTure Viewer): a desktop application for viewing pretext contact maps.
2022
Significantly improving the quality of genome assemblies through curation.
10.1093/gigascience/giaa153 · 2021
Catalogue biogéographique et taxonomique des chilopodes (Chilopoda) de la France métropolitaine.
2014
Sanger Tree of Life sample preparation: triage and dissection.
10.17504/protocols.io.x54v9prmqg3e/v1 · 2023
HiGlass: web-based visual exploration and analysis of genome interaction maps.
10.1186/s13059-018-1486-1 · 2018
Singularity: scientific containers for mobility of compute.
10.1371/journal.pone.0177459 · 2017
Specimen and sample metadata standards for biodiversity genomics: a proposal from the Darwin Tree of Life project [version 1; peer review: 2 approved with reservations].
10.12688/wellcomeopenres.17605.1 · 2022
Minimap2: pairwise alignment for nucleotide sequences.
10.1093/bioinformatics/bty191 · 2018
BUSCO update: novel and streamlined workflows along with broader and deeper phylogenetic coverage for scoring of eukaryotic, prokaryotic, and viral genomes.
10.1093/molbev/msab199 · 2021
Docker: lightweight Linux containers for consistent development and deployment.
2014
Sanger Tree of Life HMW DNA fragmentation: covaris g-TUBE for ULI PacBio.
10.17504/protocols.io.q26g7pm81gwz/v1 · 2023
DToL Taxon-specific Standard Operating Procedure for the terrestrial and freshwater arthropods working group.
10.17504/protocols.io.261gennyog47/v1 · 2022
sanger-tol/treeval v1.0.0 – Ancient Atlantis.
10.5281/zenodo.10047654 · 2023
YaHS: yet another Hi-C scaffolding tool.
10.1093/bioinformatics/btac808 · doi-reference
Chromosome-level genome of Scolopendra mutilans provides insights into its evolution.
10.1111/1749-4877.12871 · doi-reference
10.1109/ipdps.2019.00041
10.1109/ipdps.2019.00041 · doi-reference
MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads.
10.1186/s12859-023-05385-y · doi-reference
A DNA barcoding framework for taxonomic verification in the Darwin Tree of Life project [version 1; peer review: 2 approved].
10.12688/wellcomeopenres.21143.1 · doi-reference
Sanger Tree of Life fragmented DNA clean up: manual SPRI.
10.17504/protocols.io.kxygx3y1dg8j/v1 · doi-reference
Myriapod genomes reveal ancestral horizontal gene transfer and hormonal gene loss in millipedes.
10.1038/s41467-022-30690-0 · doi-reference
Sanger Tree of Life HMW DNA extraction: automated MagAttract v.1.
10.17504/protocols.io.x54v9p2z1g3e/v1 · doi-reference
Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies.
10.1186/s13059-020-02134-9 · doi-reference
Towards complete and error-free genome assemblies of all vertebrate species.
10.1038/s41586-021-03451-0 · doi-reference
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.
10.1016/j.cell.2014.11.021 · doi-reference
GenomeScope 2.0 and Smudgeplot for reference-free profiling of polyploid genomes.
10.1038/s41467-020-14998-3 · doi-reference
