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: pysamstats

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

A Python utility for calculating statistics against genome position based on sequence alignments from a SAM, BAM or CRAM file.
54 versions
Latest release: almost 6 years ago
3 dependent packages
271 downloads last month

Papers Mentioning pysamstats 17

10.12688/wellcomeopenres.14306.1

CoverView: a sequence quality evaluation tool for next generation sequencing data
Cited by: 7
Author(s): Márton Münz, Shazia Mahamdallie, Shawn Yost, Andrew Rimmer, Emma Poyastro-Pearson, Ann Strydom, Sheila Seal, Elise Ruark, Nazneen Rahman
Software Mentions: 8
Published: over 6 years ago

10.1186/s13073-020-00751-4

Multiple approaches for massively parallel sequencing of SARS-CoV-2 genomes directly from clinical samples
Cited by: 98
Author(s): Mao Xiao, Xiaoqing Liu, Jingkai Ji, Min Li, Jiandong Li, Lin Yang, Wanying Sun, Peng Ren, Guifang Yang, Jincun Zhao, Tianzhu Liang, Huahui Ren, Cheng Tian, Zhong Huang, Wenchen Song, Yanqun Wang, Ziqing Deng, Yongqiang Zhao, Zhihua Ou, Daxi Wang, Jielun Cai, Xinyi Cheng, Taiqing Feng, Honglong Wu, Yanping Gong, Huanming Yang, Jian Wang, Xun Xu, Shida Zhu, Fang Chen, Yanyan Zhang, Weijun Chen, Yimin Li, Junhua Li
Software Mentions: 5
Published: over 4 years ago

10.3390/v12040478

Characterization of Potato Virus Y Isolates and Assessment of Nanopore Sequencing to Detect and Genotype Potato Viruses
Cited by: 42
Author(s): Michele Della Bartola, Stephen Byrne, Ewen Mullins
Software Mentions: 4
Published: over 4 years ago

10.1007/s13238-019-0623-2

Rescue of premature aging defects in Cockayne syndrome stem cells by CRISPR/Cas9-mediated gene correction
Cited by: 42
Author(s): Si Wang, Zheying Min, Qianzhao Ji, Li Geng, Yao Su, Zunpeng Liu, Huifang Hu, Lixia Wang, Weiqi Zhang, Keiichiro Suzuiki, Yu Huang, Pu-Yao Zhang, Tie-Shan Tang, Jing Qu, Yang Yu, Guanghui Liu, Jie Qiao
Software Mentions: 4
Published: over 5 years ago

10.3389/fpls.2018.00841

Editing of Chloroplast rps14 by PPR Editing Factor EMB2261 Is Essential for Arabidopsis Development
Cited by: 16
Author(s): Yueming K. Sun, Bernard Gutmann, Aaron Yap, Peter Kindgren, Ian Small
Software Mentions: 3
Published: over 6 years ago

10.1186/s13059-017-1209-z

Epistatic and allelic interactions control expression of ribosomal RNA gene clusters in Arabidopsis thaliana
Cited by: 32
Author(s): Fernando A. Rabanal, Terezie Mandáková, Luz Mayela Soto‐Jiménez, Robert Greenhalgh, David L. Parrott, Stefan Lutzmayer, Joshua G. Steffen, Viktoria Nizhynska, Richard Mott, Martin A. Lysak, Richard M. Clark, Magnus Nordborg
Software Mentions: 3
Published: over 7 years ago

10.1186/s13073-021-00847-5

Intra-host variation and evolutionary dynamics of SARS-CoV-2 populations in COVID-19 patients
Cited by: 80
Author(s): Yanqun Wang, Daxi Wang, Lu Zhang, Wanying Sun, Zhaoyong Zhang, Weijun Chen, Airu Zhu, Yongbo Huang, Fei Xiao, Jinxiu Yao, Mian Gan, Fang Li, Ling Luo, Xiaofang Huang, Yanjun Zhang, Sook‐San Wong, Xinyi Cheng, Jingkai Ji, Zhihua Ou, Mao Xiao, Min Li, Jiandong Li, Peng Ren, Ziqing Deng, Zhong Huang, Xun Xu, Tie Song, Chris Ka Pun Mok, Malik Peiris, Nanshan Zhong, Jingxian Zhao, Yimin Li, Junhua Li, Jincun Zhao
Software Mentions: 3
Published: over 3 years ago

10.3389/fmicb.2020.01579

Contribution of Viral Genomic Diversity to Oyster Susceptibility in the Pacific Oyster Mortality Syndrome
Cited by: 12
Author(s): Jean Delmotte, Cristian Chaparro, Richard Galinier, Julien de Lorgeril, Bruno Petton, Pierre‐Louis Stenger, Jérémie Vidal-Dupiol, D. Destoumieux-Garzón, Yannick Gueguen, Caroline Montagnani, Jean-Michel Escoubas, Guillaume Mitta
Software Mentions: 3
Published: over 4 years ago

10.1093/infdis/jiw323

Genomic Analysis Reveals a Common Breakpoint in Amplifications of the<i>Plasmodium vivax</i>Multidrug Resistance 1 Locus in Thailand
Cited by: 26
Author(s): Sarah Auburn, David Serre, Richard D. Pearson, Roberto Amato, Kanlaya Sriprawat, Sheren To, Irene Handayuni, Rossarin Suwanarusk, Bruce Russell, Eleanor Drury, Jim Stalker, Olivo Miotto, Dominic P. Kwiatkowski, François Nosten, Ric N. Price
Software Mentions: 2
Published: over 8 years ago

10.1534/g3.119.400301

Fragmentation of Pooled PCR Products for Highly Multiplexed TILLING
Cited by: 4
Author(s): Andrea Tramontano, Luka Jarc, Joanna Jankowicz-Cieślak, Bernhard J. Hofinger, Katarzyna Gajek, Miriam Szurman-Zubrzycka, Iwona Szarejko, Ivan Ingelbrecht, Bradley J. Till
Software Mentions: 2
Published: over 5 years ago

10.1128/genomeA.01204-16

Complete Genome Sequence of Human Adenovirus 7 Associated with Fatal Adult Pneumonia
Cited by: 2
Author(s): S. B. Yatsyshina, М. Р. Агеева, Andrei A. Deviatkin, Ekaterina V. Pimkina, Mikhail L. Markelov, Vladimir G. Dedkov, Marina V. Safonova, Elena Shumilina, Alexander N. Lukashev, German A. Shipulin
Software Mentions: 1
Published: about 8 years ago

10.3389/fmed.2021.585358

Population Bottlenecks and Intra-host Evolution During Human-to-Human Transmission of SARS-CoV-2
Cited by: 27
Author(s): Daxi Wang, Yanqun Wang, Wanying Sun, Zengjun Lu, Jingkai Ji, Zhaoyong Zhang, Xinyi Cheng, Yimin Li, Fei Xiao, Airu Zhu, Bei Zhong, Si-Min Ruan, Jian Dong Li, Peng Ren, Zhihua Ou, Mao Xiao, Min Li, Ziqing Deng, Zhong Huang, Fuqiang Li, Wenjing Wang, Yong‐Wei Zhang, Weijun Chen, Shida Zhu, Xun Xu, Xin Jin, Jingxian Zhao, Nanshan Zhong, Wenwei Zhang, Jincun Zhao, Junhua Li, Yonghao Xu
Software Mentions: 1
Published: almost 4 years ago

10.3389/fimmu.2019.02200

Polymorphisms in the Mitochondrial Genome Are Associated With Bullous Pemphigoid in Germans
Cited by: 4
Author(s): Juliane Russlies, Anke Fähnrich, Mareike Witte, Youlun Ju, Sandrine Benoit, Regine Gläser, Claudia Günter, Rüdiger Eming, Jeanette Erdmann, Damian Gola, Yask Gupta, Maike M. Holtsche, Johannes S. Kern, Inke R. König, Dimitra Kiritsi, Wolfgang Lieb, Christian D. Sadik, Miklós Sárdy, Franziska Schauer, Nina van Beek, Anke Weidinger, Margitta Worm, Detlef Zillikens, Enno Schmidt, Hauke Busch, Saleh M. Ibrahim, Misa Hirose
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.ppat.1005257

Diversity of Mycobacterium tuberculosis across Evolutionary Scales
Cited by: 54
Author(s): Mary O’Neill, Tatum D Mortimer, Caitlin S. Pepperell
Software Mentions: 1
Published: about 9 years ago

10.1099/mgen.0.000364

Distinct patterns of mutational sensitivity for λ resistance and maltodextrin transport in Escherichia coli LamB
Cited by: 9
Author(s): Bryan Andrews, Stanley Fields
Software Mentions: 1
Published: over 4 years ago

10.1038/s41598-017-10342-w

Enrichment of Viral Nucleic Acids by Solution Hybrid Selection with Genus Specific Oligonucleotides
Cited by: 6
Author(s): Andrei A. Deviatkin, Alexander N. Lukashev, Mikhail M. Markelov, Larissa V. Gmyl, German A. Shipulin
Software Mentions: 1
Published: about 7 years ago

10.1002/brb3.669

High-throughput sequencing revealed a novel SETX mutation in a Hungarian patient with amyotrophic lateral sclerosis
Cited by: 21
Author(s): Kornélia Tripolszki, Dóra Török, David Goudenège, Katalin Farkas, Adrienn Sulák, Nóra Török, J. Engelhardt, Péter Klivényi, Vincent Procaccio, Nikoletta Nagy, Márta Széll
Software Mentions: 1
Published: over 7 years ago