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: shiver

https://packages.ecosyste.ms/registries/pypi.org/packages/shiver

A multi-threaded work queue for functions compiled with llvmpy
3 versions
Latest release: over 11 years ago
9 downloads last month

Papers Mentioning shiver 9

Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver
Cited by: 51
Author(s): Chris Wymant, François Blanquart, Tanya Golubchik, Astrid Gall, Margreet Bakker, Daniela Bezemer, Nicholas J. Croucher, Matthew Hall, Mariska Hillebregt, Swee Hoe Ong, Oliver Ratmann, Jan Albert, Norbert Bannert, Jacques Fellay, Katrien Fransen, Annabelle Gourlay, M Kate Grabowski, Barbara Gunsenheimer‐Bartmeyer, Huldrych F Günthard, Pia Kivelä, Roger D. Kouyos, Oliver Laeyendecker, Kirsi Liitsola, Laurence Meyer, Kholoud Porter, Matti Ristola, Ard van Sighem, Ben Berkhout, Marion Cornelissen, Paul Kellam, Peter Reiss, Christophe Fraser
Software Mentions: 4
Published: almost 7 years ago

10.1093/molbev/msx304

PHYLOSCANNER: Inferring Transmission from Within- and Between-Host Pathogen Genetic Diversity
Cited by: 109
Author(s): Chris Wymant, Matthew Hall, Oliver Ratmann, David Bonsall, Tanya Golubchik, Mariateresa de Cesare, Astrid Gall, Marion Cornelissen, Christophe Fraser
Software Mentions: 3
Published: almost 7 years ago

10.7448/IAS.20.6.22253

Oral abstracts of the 21st International AIDS Conference
Cited by: 5
Author(s):
Software Mentions: 3
Published: over 7 years ago

10.3390/v12020149

Emerging PCR-Based Techniques to Study HIV-1 Reservoir Persistence
Cited by: 18
Author(s): Laurens Lambrechts, Basiel Cole, Sofie Rutsaert, Wim Trypsteen, Linos Vandekerckhove
Software Mentions: 2
Published: almost 5 years ago

10.3390/v11040323

Interpreting Viral Deep Sequencing Data with GLUE
Cited by: 16
Author(s): Joshua B. Singer, Emma C. Thomson, Joseph Hughes, Elihu Aranday-Cortes, John McLauchlan, Ana da Silva Filipe, L. Tong, Carmen F. Manso, Robert J. Gifford, David L. Robertson, Eleanor Barnes, Azim Ansari, Jean L. Mbisa, David F. Bibby, Daniel Bradshaw, David A. Smith
Software Mentions: 2
Published: over 5 years ago

10.7717/peerj.12129

VGEA: an RNA viral assembly toolkit
Cited by: 1
Author(s): Paul E. Oluniyi, Fehintola V. Ajogbasile, Judith Oguzie, Jessica N. Uwanibe, Adeyemi T. Kayode, Anise N. Happi, Alphonsus Ugwu, Testimony Olumade, Olusola A. Ogunsanya, Philomena Eromon, Onikepe A. Folarin, Simon D. W. Frost, Jonathan L. Heeney, Christian Happi
Software Mentions: 2
Published: about 3 years ago

10.1128/JCM.00382-20

A Comprehensive Genomics Solution for HIV Surveillance and Clinical Monitoring in Low-Income Settings
Cited by: 28
Author(s): David Bonsall, Tanya Golubchik, Mariateresa de Cesare, Mohammed Limbada, Barry Kosloff, George MacIntyre-Cockett, Matthew Hall, Chris Wymant, Azim Ansari, Lucie Abeler-Dörner, Ab Schaap, Anthony Brown, Eleanor Barnes, Estelle Piwowar‐Manning, Susan H. Eshleman, Ethan Wilson, Lynda Emel, Richard Hayes, Sarah Fidler, Helen Ayles, Rory Bowden, Christophe Fraser, Hptn Study Team
Software Mentions: 1
Published: about 4 years ago

10.1126/science.abg0821

SARS-CoV-2 within-host diversity and transmission
Cited by: 246
Author(s): Katrina A. Lythgoe, Matthew Hall, Luca Ferretti, Mariateresa de Cesare, George MacIntyre-Cockett, Amy Trebes, Monique Andersson, Newton O. Otecko, Emma L. Wise, Nathan Moore, Jessica Lynch, Stephen P. Kidd, Nicholas Cortes, Matilde Mori, Rebecca Williams, Gabrielle Vernet, Anita Justice, Angie Green, Samuel M. Nicholls, Azim Ansari, Lucie Abeler-Dörner, Catrin E. Moore, Timothy E. A. Peto, David W Eyre, R. H. Shaw, Peter Simmonds, David Buck, John A. Todd, Thomas R. Connor, Shirin Ashraf, Ana da Silva Filipe, James G. Shepherd, Emma C. Thomson, David Bonsall, Christophe Fraser, Tanya Golubchik
Software Mentions: 1
Published: over 3 years ago

10.1016/S0140-6736(21)00628-0

Efficacy of ChAdOx1 nCoV-19 (AZD1222) vaccine against SARS-CoV-2 variant of concern 202012/01 (B.1.1.7): an exploratory analysis of a randomised controlled trial
Cited by: 520
Author(s): Katherine R. W. Emary, Tanya Golubchik, Parvinder K. Aley, Cristina V. Ariani, Brian Angus, Sagida Bibi, Beth Blane, David Bonsall, Paola Cicconi, Sue Charlton, Elizabeth A. Clutterbuck, Andrea Collins, Tony Cox, Thomas C. Darton, Christina Dold, Alexander D. Douglas, Christopher Duncan, Katie Ewer, Amy Flaxman, Saul N Faust, Daniela M. Ferreira, Luzhao Feng, Adam Finn, Pedro M. Folegatti, Michelle Fuskova, Eva Galiza, Anna Goodman, Catherine Green, Christopher Green, Melanie Greenland, Bassam Hallis, Paul T Heath, Jodie Hay, Helen Hill, Daniel Jenkin, Simon Kerridge, Rajeka Lazarus, Vincenzo Libri, Patrick Lillie, Catherine Ludden, Natalie Marchevsky, Angela M. Minassian, Alastair McGregor, Yama F Mujadidi, Daniel J. Phillips, Emma Plested, Katrina M Pollock, Hannah Robinson, Darren Smith, Rinn Song, Matthew D. Snape, R. Sutherland, Emma C. Thomson, Mark Toshner, David P. J. Turner, Johan Vekemans, Tonya Villafana, Christopher J. Williams, Adrian V. S. Hill, Teresa Lambe, Sarah C. Gilbert, Merryn Voysey, Maheshi Ramasamy, Andrew J. Pollard
Software Mentions: 1
Published: over 3 years ago