Atlas-Link statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Assembly scaffolding chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

Atlas-Link specifications

Information


Unique identifier OMICS_00040
Name Atlas-Link
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


Add your version

Atlas-Link in publications

 (10)
PMCID: 5843367
PMID: 29300007
DOI: 10.1038/nature25140

[…] to aids in siv-infected hosts. we sequenced genomic dna to a whole-genome coverage of about 180× using the illumina hiseq 2000 platform, and produced an initial assembly using allpaths-lg, atlas-link and atlas-gapfill (see methods for details). the total size of the assembled c. atys genome (caty_1.0; ncbi accession number gca_000955945.1) is around 2.85 gb, with a contig n50 size […]

PMCID: 5689209
PMID: 29145861
DOI: 10.1186/s12915-017-0439-6

[…] sequencing was performed on illumina hiseq 2000 instruments generating 100 bp pe reads. reads were assembled using allpaths-lg (v35218) [] and further scaffolded and gap-filled using in-house tools atlas-link (v.1.0) and atlas gapfill (v.2.2) (https://www.hgsc.bcm.edu/software/). atlas-link is a scaffolding or super-scaffolding method that utilizes all unused mate pairs to increase scaffold […]

PMCID: 5535294
PMID: 28756775
DOI: 10.1186/s12915-017-0399-x

[…] described above., sequencing was performed using illumina hiseq2000 generating 100 bp paired-end reads. reads were assembled using allpaths-lg (v35218) [] and further scaffolded and gap-filled using atlas-link (v.1.0) and atlas gap-fill (v.2.2) []. for p. tepidariorum, this yielded an assembly size of 1443.9 mb with 263,833 contigs with an n50 of 10.1 kb and, after scaffolding and gap closing, […]

PMCID: 5850775
PMID: 28460028
DOI: 10.1093/molbev/msx147

[…] automated and manual annotation., the genomic sequence of the copepod e. affinis was assembled using allpaths-lg (release 3‐35218) () and further scaffolded and gap-filled using in-house tools atlas-link (v.1.0) and atlas gap-fill (ver.2.2) (https://www.hgsc.bcm.edu/software; last accessed may 4, 2017). this yielded an assembly of size 494.8 mb including gaps within scaffolds, with contig […]

PMCID: 5105290
PMID: 27832824
DOI: 10.1186/s13059-016-1088-8

[…] sequencing was performed on illumina hiseq2000s generating 100-bp paired-end reads. reads were assembled using allpaths-lg (v35218) and further scaffolded and gap-filled using in-house tools atlas-link (v.1.0) and atlas gap-fill (v.2.2) (https://www.hgsc.bcm.edu/software/). data for the a. glabripennis genome have been deposited in the genbank/embl/ddbj bioproject database […]


To access a full list of publications, you will need to upgrade to our premium service.

Atlas-Link reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Atlas-Link