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: HAL
https://packages.ecosyste.ms/registries/pypi.org/packages/HAL
Powerful AI Framework
3 versions
Latest release: about 12 years ago
76 downloads last month
Papers Mentioning HAL 32
10.1371/journal.pcbi.1008605
Machine learning based CRISPR gRNA design for therapeutic exon skippingCited by: 5
Author(s): Wilson Louie, Max W. Shen, Zakir Tahiry, Sophia Zhang, Daniel Worstell, Christopher A. Cassa, Richard I. Sherwood, David K. Gifford
Software Mentions: 8
Published: almost 4 years ago
10.1371/journal.pgen.1009027
Prioritizing sequence variants in conserved non-coding elements in the chicken genome using chCADDCited by: 5
Author(s): Christian Groß, Chiara Bortoluzzi, Dick de Ridder, Hendrik‐Jan Megens, Martien A. M. Groenen, Marcel J. T. Reinders, Mirte Bosse
Software Mentions: 6
Published: about 4 years ago
10.3389/fcell.2020.00673
Named Entity Recognition and Relation Detection for Biomedical Information ExtractionCited by: 63
Author(s): Nadeesha Perera, Matthias Dehmer, Frank Emmert‐Streib
Software Mentions: 5
Published: about 4 years ago
10.3389/fpsyg.2016.01646
Predicting Lexical Priming Effects from Distributional Semantic Similarities: A Replication with ExtensionCited by: 6
Author(s): Fritz Günther, Carolin Dudschig, Barbara Kaup
Software Mentions: 5
Published: about 8 years ago
10.1002/ece3.7204
Climatic change drives dynamic source–sink relationships in marine species with high dispersal potentialCited by: 4
Author(s): Catarina N. S. Silva, Elaine Young, Nicholas P. Murphy, James J. Bell, Bridget S. Green, Simon A. Morley, Guy Duhamel, A. C. Cockcroft, Jan M. Strugnell
Software Mentions: 4
Published: over 3 years ago
10.1186/s13073-021-00835-9
CADD-Splice—improving genome-wide variant effect prediction using deep learning-derived splice scoresCited by: 294
Author(s): Philipp Rentzsch, Max Schubach, Jay Shendure, Martin Kircher
Software Mentions: 4
Published: over 3 years ago
10.1186/s12915-020-00797-1
The roles of hybridization and habitat fragmentation in the evolution of Brazil’s enigmatic longwing butterflies, Heliconius nattereri and H. hermathenaCited by: 14
Author(s): Darli Massardo, Nicholas W. VanKuren, Sumitha Nallu, Renato Rogner Ramos, Pedro G. Ribeiro, Karina Lucas Silva‐Brandão, Marcelo Mendes Brandão, Marília Bruzzi Lion, André Victor Lucci Freitas, Márcio Zikán Cardoso, Marcus R. Kronforst
Software Mentions: 4
Published: over 4 years ago
10.1371/journal.pone.0078858
Comparative and Phylogenomic Evidence That the Alphaproteobacterium HIMB59 Is Not a Member of the Oceanic SAR11 CladeCited by: 33
Author(s): Jenny Viklund, Joran Martijn, Thijs J. G. Ettema, Siv G. E. Andersson
Software Mentions: 3
Published: about 11 years ago
10.1186/s13059-019-1653-z
MMSplice: modular modeling improves the predictions of genetic variant effects on splicingCited by: 122
Author(s): Jianghua Cheng, Thi Yen Duong Nguyen, Kamil J. Cygan, Muhammed Hasan Çelik, William G. Fairbrother, Žiga Avsec
Software Mentions: 3
Published: over 5 years ago
10.1186/s12864-016-3083-6
De-novo transcriptome assembly for gene identification, analysis, annotation, and molecular marker discovery in Onobrychis viciifoliaCited by: 30
Author(s): Marina Mora-Ortiz, Martin Swain, Martin Vickers, Matthew J. Hegarty, Rhys Kelly, Lydia Smith, Leif Skøt
Software Mentions: 3
Published: about 8 years ago
10.1093/molbev/msz113
Fitness Landscape of the Fission Yeast GenomeCited by: 12
Author(s): Leanne Grech, Daniel C. Jeffares, Christoph Sadée, María Rodríguez-López, Danny A. Bitton, Mimoza Hoti, Carolina Biagosch, Dimitra Aravani, Maarten Speekenbrink, Christopher J. R. Illingworth, Philipp H. Schiffer, Alison L. Pidoux, Pin Tong, Juan Jiménez, Robin C. Allshire, Henry L. Levin, Jürg Bähler
Software Mentions: 2
Published: over 5 years ago
10.5194/acp-19-15321-2019
Impact of halogen chemistry on summertime air quality in coastal and continental Europe: application of the CMAQ model and implications for regulationCited by: 12
Author(s): Qinyi Li, Rafael Borge, Golam Sarwar, David de la Paz, B. Gantt, Jessica Domingo, Carlos A. Cuevas, Alfonso Saiz‐Lopez
Software Mentions: 2
Published: almost 5 years ago
10.1093/gigascience/giaa047
halSynteny: a fast, easy-to-use conserved synteny block construction method for multiple whole-genome alignmentsCited by: 8
Author(s): Ksenia Krasheninnikova, Mark Diekhans, Joel Armstrong, Aleksei Dievskii, Benedict Paten, Stephen J. O’Brien
Software Mentions: 2
Published: over 4 years ago
10.1093/bioinformatics/btt128
HAL: a hierarchical format for storing and analyzing multiple genome alignmentsCited by: 143
Author(s): Glenn Hickey, Benedict Paten, Dent Earl, Daniel R. Zerbino, David Haussler
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pgen.1009284
A rare coding mutation in the MAST2 gene causes venous thrombosis in a French family with unexplained thrombophilia: The Breizh MAST2 Arg89Gln variantCited by: 4
Author(s): Pierre‐Emmanuel Morange, Franck Peiretti, Lénaïck Gourhant, Carole Proust, Omar Soukarieh, Anne-Sophie Pulcrano-Nicolas, Ganapathi-Varma Saripella, Luca Stefanucci, Romaric Lacroix, Manal Ibrahim‐Kosta, Catherine A. Lemarié, Mattia Frontini, Marie‐Christine Alessi, David‐Alexandre Trégouët, Francis Couturaud
Software Mentions: 2
Published: almost 4 years ago
10.1186/s12864-015-1777-9
The genome of the truffle-parasite Tolypocladium ophioglossoides and the evolution of antifungal peptaibioticsCited by: 41
Author(s): C. Alisha Quandt, Kathryn E. Bushley, Joseph W. Spatafora
Software Mentions: 2
Published: over 9 years ago
10.1371/journal.pone.0023973
One Carbon Metabolism in SAR11 Pelagic Marine BacteriaCited by: 164
Author(s): Jing Sun, Laura Steindler, J. Cameron Thrash, Kimberly H. Halsey, Daniel P. Smith, Amy E. Carter, Zachary C. Landry, Stephen J. Giovannoni
Software Mentions: 2
Published: about 13 years ago
10.1371/journal.pcbi.1007635
Hybrid Automata Library: A flexible platform for hybrid modeling with real-time visualizationCited by: 55
Author(s): Rafael Bravo, Etienne Baratchart, Jeffrey West, Ryan O. Schenck, Anna K. Miller, Jill Gallaher, Chandler D. Gatenbee, David Basanta, Mark Robertson-Tessi, Alexander R.A. Anderson
Software Mentions: 2
Published: over 4 years ago
10.3390/s140101705
Wearable Gait Measurement System with an Instrumented Cane for Exoskeleton ControlCited by: 80
Author(s): Modar Hassan, Hideki Kadone, Kenji Suzuki, Yoshiyuki Sankai
Software Mentions: 2
Published: almost 11 years ago
10.3390/s16050597
Streetlight Control System Based on Wireless Communication over DALI ProtocolCited by: 29
Author(s): F.J. Bellido-Outeiriño, Francisco Javier Quiles-Latorre, Carlos D. Moreno-Moreno, J.M. Flores-Arias, Isabel M. Moreno-Garcia, Manuel Ortíz-López
Software Mentions: 2
Published: over 8 years ago
10.1155/2017/9053630
An Open-Structure Treadmill Gait Trainer: From Research to ApplicationCited by: 1
Author(s): Jian Jian Li, Diansheng Chen, Yubo Fan
Software Mentions: 1
Published: almost 8 years ago
10.1155/2018/7847014
Dynamic Balance Gait for Walking Assistance ExoskeletonCited by: 24
Author(s): Qiming Chen, Hong Cheng, Chunfeng Yue, Rui Huang, Hongliang Guo
Software Mentions: 1
Published: over 6 years ago
10.31372/20180304.1022
Can Nursing Drive Technological Advances in Healthcare in the Asia- Pacific?Cited by: 4
Author(s): Joseph Andrew Pepito, Rozzano C. Locsin
Software Mentions: 1
Published: almost 7 years ago
10.1186/1471-2105-7-536
TaxMan: a taxonomic database managerCited by: 6
Author(s): Martin O. Jones, Mark Blaxter
Software Mentions: 1
Published: almost 18 years ago
10.1186/1471-2105-13-S11-S6
Semantically linking molecular entities in literature through entity relationshipsCited by: 13
Author(s): Sofie Van Landeghem, Jari Björne, Thomas Abeel, Bernard De Baets, Tapio Salakoski, Yves Van de Peer
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pcbi.1007961
Mathematical modelling reveals cellular dynamics within tumour spheroidsCited by: 51
Author(s): Joshua A. Bull, Franziska Mech, Tom Quaiser, Sarah L. Waters, Helen M. Byrne
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pone.0173730
Development and evaluation of a soft wearable weight support device for reducing muscle fatigue on shoulderCited by: 46
Author(s): Daegeun Park, Kyu-Jin Cho
Software Mentions: 1
Published: over 7 years ago
10.3389/fpsyt.2021.617751
The Tuberculosis-Depression Syndemic and Evolution of Pharmaceutical Therapeutics: From Ancient Times to the FutureCited by: 6
Author(s): Martie van der Walt, Karen Keddy
Software Mentions: 1
Published: over 3 years ago
10.1186/2041-1480-2-1
Protein interaction sentence detection using multiple semantic kernelsCited by: 11
Author(s): Tamara Polajnar, Theodoros Damoulas, Mark Girolami
Software Mentions: 1
Published: almost 14 years ago
10.1155/2015/849831
Development of a Portable Gait Rehabilitation System for Home-Visit RehabilitationCited by: 6
Author(s): Hiroaki Yano, Naoki Tanaka, Kiyotaka Kamibayashi, Hideyuki Saitou, Hiroyasu Iwata
Software Mentions: 1
Published: almost 10 years ago
10.1186/s13643-017-0421-y
RevManHAL: towards automatic text generation in systematic reviewsCited by: 11
Author(s): Mercedes Torres Torres, Clive E Adams
Software Mentions: 1
Published: over 7 years ago
10.1155/2016/4237523
Improving Patient Safety through Simulation Training in Anesthesiology: Where Are We?Cited by: 45
Author(s): Michael Green, Rayhan Tariq, Parmis Green
Software Mentions: 1
Published: almost 9 years ago