Evaluated articles

Showing page 13 of 23 pages of list content

Toward A Reproducible, Scalable Framework for Processing Large Neuroimaging Datasets

This article has 17 authors:
1. Erik C. Johnson
2. Miller Wilt
3. Luis M. Rodriguez
4. Raphael Norman-Tenazas
5. Corban Rivera
6. Nathan Drenkow
7. Dean Kleissas
8. Theodore J. LaGrow
9. Hannah Cowley
10. Joseph Downs
11. Jordan Matelsky
12. Marisa Hughes
13. Elizabeth Reilly
14. Brock Wester
15. Eva Dyer
16. Konrad Kording
17. William Gray-Roncal
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Apr 22, 2019Latest activity Jan 26, 2022
CNVpytor: a tool for copy number variation detection and analysis from read depth and allele imbalance in whole-genome sequencing

This article has 5 authors:
1. Milovan Suvakov
2. Arijit Panda
3. Colin Diesh
4. Ian Holmes
5. Alexej Abyzov
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Nov 1, 2021Latest activity Jan 24, 2022
Building the mega single-cell transcriptome ocular meta-atlas

This article has 4 authors:
1. Vinay S Swamy
2. Temesgen D Fufa
3. Robert B Hufnagel
4. David M McGaughey
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2021Latest activity Jan 24, 2022
A chromosome-level genome assembly for the eastern fence lizard ( Sceloporus undulatus ), a reptile model for physiological and evolutionary ecology

This article has 20 authors:
1. Aundrea K Westfall
2. Rory S Telemeco
3. Mariana B Grizante
4. Damien S Waits
5. Amanda D Clark
6. Dasia Y Simpson
7. Randy L Klabacka
8. Alexis P Sullivan
9. George H Perry
10. Michael W Sears
11. Christian L Cox
12. Robert M Cox
13. Matthew E Gifford
14. Henry B John-Alder
15. Tracy Langkilde
16. Michael J Angilletta
17. Adam D Leaché
18. Marc Tollis
19. Kenro Kusumi
20. Tonia S Schwartz
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2021Latest activity Jan 24, 2022
ChronoRoot: High-throughput phenotyping by deep segmentation networks reveals novel temporal parameters of plant root system architecture

This article has 11 authors:
1. Nicolás Gaggion
2. Federico Ariel
3. Vladimir Daric
4. Éric Lambert
5. Simon Legendre
6. Thomas Roulé
7. Alejandra Camoirano
8. Diego H Milone
9. Martin Crespi
10. Thomas Blein
11. Enzo Ferrante
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jul 1, 2021Latest activity Jan 24, 2022
Phylogenetic diversity analysis of shotgun metagenomic reads describes gut microbiome development and treatment effects in the post-weaned pig

This article has 8 authors:
1. Daniela Gaio
2. Matthew Z. DeMaere
3. Kay Anantanawat
4. Graeme J. Eamens
5. Linda Falconer
6. Toni A. Chapman
7. Steven Djordjevic
8. Aaron E. Darling
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jun 24, 2022Latest activity Jan 24, 2022
BiSulfite Bolt: A bisulfite sequencing analysis platform

This article has 5 authors:
1. Colin Farrell
2. Michael Thompson
3. Anela Tosevska
4. Adewale Oyetunde
5. Matteo Pellegrini
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version May 1, 2021Latest activity Jan 24, 2022
The germline mutational process in rhesus macaque and its implications for phylogenetic dating

This article has 11 authors:
1. Lucie A Bergeron
2. Søren Besenbacher
3. Jaco Bakker
4. Jiao Zheng
5. Panyi Li
6. George Pacheco
7. Mikkel-Holger S Sinding
8. Maria Kamilari
9. M Thomas P Gilbert
10. Mikkel H Schierup
11. Guojie Zhang
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version May 1, 2021Latest activity Jan 24, 2022
Fluorescence microscopy datasets for training deep neural networks

This article has 6 authors:
1. Guy M Hagen
2. Justin Bendesky
3. Rosa Machado
4. Tram-Anh Nguyen
5. Tanmay Kumar
6. Jonathan Ventura
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version May 1, 2021Latest activity Jan 24, 2022
Chromatin conformation capture (Hi-C) sequencing of patient-derived xenografts: analysis guidelines

This article has 7 authors:
1. Mikhail G Dozmorov
2. Katarzyna M Tyc
3. Nathan C Sheffield
4. David C Boyd
5. Amy L Olex
6. Jason Reed
7. J Chuck Harrell
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Apr 1, 2021Latest activity Jan 24, 2022
Synonymous variants that disrupt messenger RNA structure are significantly constrained in the human population

This article has 8 authors:
1. Jeffrey B S Gaither
2. Grant E Lammi
3. James L Li
4. David M Gordon
5. Harkness C Kuck
6. Benjamin J Kelly
7. James R Fitch
8. Peter White
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Apr 1, 2021Latest activity Jan 24, 2022
A chromosome-level genome assembly for the Pacific oyster Crassostrea gigas

This article has 8 authors:
1. Carolina Peñaloza
2. Alejandro P Gutierrez
3. Lél Eöry
4. Shan Wang
5. Ximing Guo
6. Alan L Archibald
7. Tim P Bean
8. Ross D Houston
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Mar 1, 2021Latest activity Jan 24, 2022
Rapid development of cloud-native intelligent data pipelines for scientific data streams using the HASTE Toolkit

This article has 10 authors:
1. Ben Blamey
2. Salman Toor
3. Martin Dahlö
4. Håkan Wieslander
5. Philip J Harrison
6. Ida-Maria Sintorn
7. Alan Sabirsh
8. Carolina Wählby
9. Ola Spjuth
10. Andreas Hellander
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Mar 1, 2021Latest activity Jan 24, 2022
Chromosome-level genome assemblies of the malaria vectors Anopheles coluzzii and Anopheles arabiensis

This article has 10 authors:
1. Anton Zamyatin
2. Pavel Avdeyev
3. Jiangtao Liang
4. Atashi Sharma
5. Chujia Chen
6. Varvara Lukyanchikova
7. Nikita Alexeev
8. Zhijian Tu
9. Max A Alekseyev
10. Igor V Sharakhov
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Mar 1, 2021Latest activity Jan 24, 2022
The case for using mapped exonic non-duplicate reads when reporting RNA-sequencing depth: examples from pediatric cancer datasets

This article has 17 authors:
1. Holly C Beale
2. Jacquelyn M Roger
3. Matthew A Cattle
4. Liam T McKay
5. Drew K A Thompson
6. Katrina Learned
7. A Geoffrey Lyle
8. Ellen T Kephart
9. Rob Currie
10. Du Linh Lam
11. Lauren Sanders
12. Jacob Pfeil
13. John Vivian
14. Isabel Bjork
15. Sofie R Salama
16. David Haussler
17. Olena M Vaske
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Mar 1, 2021Latest activity Jan 24, 2022
HTSlib: C library for reading/writing high-throughput sequencing data

This article has 8 authors:
1. James K Bonfield
2. John Marshall
3. Petr Danecek
4. Heng Li
5. Valeriu Ohan
6. Andrew Whitwham
7. Thomas Keane
8. Robert M Davies
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 29, 2021Latest activity Jan 24, 2022
MB-GAN: Microbiome Simulation via Generative Adversarial Network

This article has 8 authors:
1. Ruichen Rong
2. Shuang Jiang
3. Lin Xu
4. Guanghua Xiao
5. Yang Xie
6. Dajiang J Liu
7. Qiwei Li
8. Xiaowei Zhan
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 29, 2021Latest activity Jan 24, 2022
Lilikoi V2.0: a deep learning–enabled, personalized pathway-based R package for diagnosis and prognosis predictions using metabolomics data

This article has 6 authors:
1. Xinying Fang
2. Yu Liu
3. Zhijie Ren
4. Yuheng Du
5. Qianhui Huang
6. Lana X Garmire
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 1, 2021Latest activity Jan 24, 2022
Understanding the impact of preprocessing pipelines on neuroimaging cortical surface analyses

This article has 13 authors:
1. Nikhil Bhagwat
2. Amadou Barry
3. Erin W Dickie
4. Shawn T Brown
5. Gabriel A Devenyi
6. Koji Hatano
7. Elizabeth DuPre
8. Alain Dagher
9. Mallar Chakravarty
10. Celia M T Greenwood
11. Bratislav Misic
12. David N Kennedy
13. Jean-Baptiste Poline
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 1, 2021Latest activity Jan 24, 2022
Streamlining data-intensive biology with workflow systems

This article has 8 authors:
1. Taylor Reiter
2. Phillip T Brooks†
3. Luiz Irber†
4. Shannon E K Joslin†
5. Charles M Reid†
6. Camille Scott†
7. C Titus Brown
8. N Tessa Pierce-Ward
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 1, 2021Latest activity Jan 24, 2022

Evaluated articles

Toward A Reproducible, Scalable Framework for Processing Large Neuroimaging Datasets

CNVpytor: a tool for copy number variation detection and analysis from read depth and allele imbalance in whole-genome sequencing

Building the mega single-cell transcriptome ocular meta-atlas

A chromosome-level genome assembly for the eastern fence lizard ( Sceloporus undulatus ), a reptile model for physiological and evolutionary ecology

ChronoRoot: High-throughput phenotyping by deep segmentation networks reveals novel temporal parameters of plant root system architecture

Phylogenetic diversity analysis of shotgun metagenomic reads describes gut microbiome development and treatment effects in the post-weaned pig

BiSulfite Bolt: A bisulfite sequencing analysis platform

The germline mutational process in rhesus macaque and its implications for phylogenetic dating

Fluorescence microscopy datasets for training deep neural networks

Chromatin conformation capture (Hi-C) sequencing of patient-derived xenografts: analysis guidelines

Synonymous variants that disrupt messenger RNA structure are significantly constrained in the human population

A chromosome-level genome assembly for the Pacific oyster Crassostrea gigas

Rapid development of cloud-native intelligent data pipelines for scientific data streams using the HASTE Toolkit

Chromosome-level genome assemblies of the malaria vectors Anopheles coluzzii and Anopheles arabiensis

The case for using mapped exonic non-duplicate reads when reporting RNA-sequencing depth: examples from pediatric cancer datasets

HTSlib: C library for reading/writing high-throughput sequencing data

MB-GAN: Microbiome Simulation via Generative Adversarial Network

Lilikoi V2.0: a deep learning–enabled, personalized pathway-based R package for diagnosis and prognosis predictions using metabolomics data

Understanding the impact of preprocessing pipelines on neuroimaging cortical surface analyses

Streamlining data-intensive biology with workflow systems