Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: edlib
https://packages.ecosyste.ms/registries/pypi.org/packages/edlib
Lightweight, super fast library for sequence alignment using edit (Levenshtein) distance.
18 versions
Latest release: about 3 years ago
18 dependent packages
45,448 downloads last month
Papers Mentioning edlib 11
10.1186/s13059-020-02151-8
Alignment and mapping methodology influence transcript abundance estimationCited by: 80
Author(s): Avi Srivastava, Laraib Malik, Hirak Sarkar, Mohsen Zakeri, Fatemeh Almodaresi, Charlotte Soneson, Michael I. Love, Carl Kingsford, Rob Patro
Software Mentions: 13
Published: about 4 years ago
10.7717/peerj.4925
Non-biological synthetic spike-in controls and the AMPtk software pipeline improve mycobiome dataCited by: 166
Author(s): Jonathan M. Palmer, Michelle A. Jusino, Mark T. Banik, Daniel L. Lindner
Software Mentions: 8
Published: over 6 years ago
10.1186/s13059-021-02474-0
Gramtools enables multiscale variation analysis with genome graphsCited by: 13
Author(s): Brice Letcher, Martin Hunt, Zamin Iqbal
Software Mentions: 5
Published: about 3 years ago
10.1186/s13059-021-02483-z
Trycycler: consensus long-read assemblies for bacterial genomesCited by: 128
Author(s): Ryan R. Wick, Louise M. Judd, Louise Cerdeira, Jane Hawkey, Guillaume Méric, Ben Vezina, Kelly L. Wyres, Kathryn E. Holt
Software Mentions: 4
Published: about 3 years ago
10.1186/s12859-018-2014-8
Introducing difference recurrence relations for faster semi-global alignment of long sequencesCited by: 69
Author(s): Hajime Suzuki, Masahiro Kasahara
Software Mentions: 3
Published: over 6 years ago
10.1186/s12915-021-01141-x
ONTbarcoder and MinION barcodes aid biodiversity discovery and identification by everyone, for everyoneCited by: 56
Author(s): Amrita Srivathsan, Leshon Lee, Kazutaka Katoh, Emily Hartop, Sujatha Narayanan Kutty, Johnathan Wong, Darren C. J. Yeo, Rudolf Meier
Software Mentions: 3
Published: almost 3 years ago
10.1186/s13059-020-02090-4
Producing polished prokaryotic pangenomes with the Panaroo pipelineCited by: 327
Author(s): Gerry Tonkin‐Hill, Neil MacAlasdair, Christopher Ruis, Aaron Weimann, Gal Horesh, John A. Lees, Rebecca A. Gladstone, Stephanie Lo, Christopher Beaudoin, R. Andres Floto, Simon D. W. Frost, Jukka Corander, Stephen D. Bentley, Julian Parkhill
Software Mentions: 3
Published: about 4 years ago
10.1186/s13059-020-01974-9
Ultraplexing: increasing the efficiency of long-read sequencing for hybrid assembly with k-mer-based multiplexingCited by: 5
Author(s): Alexander Dilthey, Sebastian Meyer, Achim J. Kaasch
Software Mentions: 2
Published: over 4 years ago
10.1186/s13059-020-02244-4
Ratatosk: hybrid error correction of long reads enables accurate variant calling and assemblyCited by: 24
Author(s): Guillaume Holley, Doruk Beyter, Helga Ingimundardóttir, Peter L. Møller, Snædís Kristmundsdóttir, Hannes P. Eggertsson, Bjarni V. Halldórsson
Software Mentions: 1
Published: over 3 years ago
10.1093/bioinformatics/btaa1034
SVIM-asm: structural variant detection from haploid and diploid genome assembliesCited by: 35
Author(s): David Heller, Martin Vingron
Software Mentions: 1
Published: almost 4 years ago
10.3390/s20247244
Simulation of Nanopore Sequencing Signals Based on BiGRUCited by: 7
Author(s): Weigang Chen, Peng Zhang, Lifu Song, Jinsheng Yang, Changcai Han
Software Mentions: 1
Published: almost 4 years ago