Evaluated articles

Showing page 9 of 20 pages of list content

GraphClust2: Annotation and discovery of structured RNAs with scalable and accessible integrative clustering

This article has 7 authors:
1. Milad Miladi
2. Eteri Sokhoyan
3. Torsten Houwaart
4. Steffen Heyne
5. Fabrizio Costa
6. Björn Grüning
7. Rolf Backofen
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Dec 1, 2019Latest activity Mar 14, 2022
DENTIST—using long reads for closing assembly gaps at high accuracy

This article has 4 authors:
1. Arne Ludwig
2. Martin Pippel
3. Gene Myers
4. Michael Hiller
Reviewed by GigaScience

This article has 3 evaluationsAppears in 1 listLatest version Jan 1, 2022Latest activity Mar 9, 2022
Sim3C: simulation of HiC and Meta3C proximity ligation sequencing technologies

This article has 2 authors:
1. Matthew Z DeMaere
2. Aaron E Darling
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version May 15, 2017Latest activity Feb 20, 2022
Vulcan: Improved long-read mapping and structural variant calling via dual-mode alignment

This article has 5 authors:
1. Yilei Fu
2. Medhat Mahmoud
3. Viginesh Vaibhav Muraliraman
4. Fritz J Sedlazeck
5. Todd J Treangen
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Sep 1, 2021Latest activity Feb 6, 2022
Genetic demultiplexing of pooled single-cell RNA-sequencing samples in cancer facilitates effective experimental design

This article has 8 authors:
1. Lukas M Weber
2. Ariel A Hippen
3. Peter F Hickey
4. Kristofer C Berrett
5. Jason Gertz
6. Jennifer Anne Doherty
7. Casey S Greene
8. Stephanie C Hicks
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Sep 1, 2021Latest activity Feb 6, 2022
Bias invariant RNA-seq metadata annotation

This article has 4 authors:
1. Hannes Wartmann
2. Sven Heins
3. Karin Kloiber
4. Stefan Bonn
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Nov 27, 2020Latest activity Feb 6, 2022
DeePhage: distinguishing virulent and temperate phage-derived sequences in metavirome data with a deep learning approach

This article has 9 authors:
1. Shufang Wu
2. Zhencheng Fang
3. Jie Tan
4. Mo Li
5. Chunhui Wang
6. Qian Guo
7. Congmin Xu
8. Xiaoqing Jiang
9. Huaiqiu Zhu
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Sep 1, 2021Latest activity Feb 6, 2022
FASTQuick: rapid and comprehensive quality assessment of raw sequence reads

This article has 2 authors:
1. Fan Zhang
2. Hyun Min Kang
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 29, 2021Latest activity Feb 6, 2022
CAMITAX: Taxon labels for microbial genomes

This article has 3 authors:
1. Andreas Bremges
2. Adrian Fritz
3. Alice C McHardy
Reviewed by GigaScience

This article has 2 evaluationsAppears in 1 listLatest version Jan 1, 2020Latest activity Feb 10, 2022
IKAP—Identifying K mAjor cell Population groups in single-cell RNA-sequencing analysis

This article has 8 authors:
1. Yun-Ching Chen
2. Abhilash Suresh
3. Chingiz Underbayev
4. Clare Sun
5. Komudi Singh
6. Fayaz Seifuddin
7. Adrian Wiestner
8. Mehdi Pirooznia
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2019Latest activity Feb 6, 2022
SwiftOrtho: A fast, memory-efficient, multiple genome orthology classifier

This article has 2 authors:
1. Xiao Hu
2. Iddo Friedberg
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2019Latest activity Feb 6, 2022
Citation needed? Wikipedia bibliometrics during the first wave of the COVID-19 pandemic

This article has 3 authors:
1. Omer Benjakob
2. Rona Aviram
3. Jonathan Aryeh Sobel
Reviewed by GigaScience, preLights, ScreenIT

This article has 5 evaluationsAppears in 4 listsLatest version Jan 1, 2022Latest activity Feb 2, 2022
The intersectional genetics landscape for humans

This article has 2 authors:
1. Andre Macedo
2. Alisson M Gontijo
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Aug 1, 2020Latest activity Jan 31, 2022
Refgenie: a reference genome resource manager

This article has 5 authors:
1. Michał Stolarczyk
2. Vincent P Reuter
3. Jason P Smith
4. Neal E Magee
5. Nathan C Sheffield
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Jan 29, 2020Latest activity Jan 31, 2022
Draft genome sequence of Solanum aethiopicum provides insights into disease resistance, drought tolerance, and the evolution of the genome

This article has 29 authors:
1. Bo Song
2. Yue Song
3. Yuan Fu
4. Elizabeth Balyejusa Kizito
5. Sandra Ndagire Kamenya
6. Pamela Nahamya Kabod
7. Huan Liu
8. Samuel Muthemba
9. Robert Kariba
10. Joyce Njuguna
11. Solomon Maina
12. Francesca Stomeo
13. Appolinaire Djikeng
14. Prasad S Hendre
15. Xiaoli Chen
16. Wenbin Chen
17. Xiuli Li
18. Wenjing Sun
19. Sibo Wang
20. Shifeng Cheng
21. Alice Muchugi
22. Ramni Jamnadass
23. Howard-Yana Shapiro
24. Allen Van Deynze
25. Huanming Yang
26. Jian Wang
27. Xun Xu
28. Damaris Achieng Odeny
29. Xin Liu
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2019Latest activity Jan 31, 2022
PIRATE: A fast and scalable pangenomics toolbox for clustering diverged orthologues in bacteria

This article has 5 authors:
1. Sion C Bayliss
2. Harry A Thorpe
3. Nicola M Coyle
4. Samuel K Sheppard
5. Edward J Feil
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Oct 1, 2019Latest activity Jan 31, 2022
rnaSPAdes: a de novo transcriptome assembler and its application to RNA-Seq data

This article has 4 authors:
1. Elena Bushmanova
2. Dmitry Antipov
3. Alla Lapidus
4. Andrey D Prjibelski
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Sep 1, 2019Latest activity Jan 31, 2022
rCASC: reproducible classification analysis of single-cell sequencing data

This article has 11 authors:
1. Luca Alessandrì
2. Francesca Cordero
3. Marco Beccuti
4. Maddalena Arigoni
5. Martina Olivero
6. Greta Romano
7. Sergio Rabellino
8. Nicola Licheri
9. Gennaro De Libero
10. Luigia Pace
11. Raffaele A Calogero
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Sep 1, 2019Latest activity Jan 31, 2022
Evaluating stably expressed genes in single cells

This article has 9 authors:
1. Yingxin Lin
2. Shila Ghazanfar
3. Dario Strbenac
4. Andy Wang
5. Ellis Patrick
6. David M Lin
7. Terence Speed
8. Jean Y H Yang
9. Pengyi Yang
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Sep 1, 2019Latest activity Jan 31, 2022
A field guide for the compositional analysis of any-omics data

This article has 6 authors:
1. Thomas P Quinn
2. Ionas Erb
3. Greg Gloor
4. Cedric Notredame
5. Mark F Richardson
6. Tamsyn M Crowley
Reviewed by GigaScience

This article has 1 evaluationAppears in 1 listLatest version Sep 1, 2019Latest activity Jan 31, 2022

Evaluated articles

GraphClust2: Annotation and discovery of structured RNAs with scalable and accessible integrative clustering

DENTIST—using long reads for closing assembly gaps at high accuracy

Sim3C: simulation of HiC and Meta3C proximity ligation sequencing technologies

Vulcan: Improved long-read mapping and structural variant calling via dual-mode alignment

Genetic demultiplexing of pooled single-cell RNA-sequencing samples in cancer facilitates effective experimental design

Bias invariant RNA-seq metadata annotation

DeePhage: distinguishing virulent and temperate phage-derived sequences in metavirome data with a deep learning approach

FASTQuick: rapid and comprehensive quality assessment of raw sequence reads

CAMITAX: Taxon labels for microbial genomes

IKAP—Identifying K mAjor cell Population groups in single-cell RNA-sequencing analysis

SwiftOrtho: A fast, memory-efficient, multiple genome orthology classifier

Citation needed? Wikipedia bibliometrics during the first wave of the COVID-19 pandemic

The intersectional genetics landscape for humans

Refgenie: a reference genome resource manager

Draft genome sequence of Solanum aethiopicum provides insights into disease resistance, drought tolerance, and the evolution of the genome

PIRATE: A fast and scalable pangenomics toolbox for clustering diverged orthologues in bacteria

rnaSPAdes: a de novo transcriptome assembler and its application to RNA-Seq data

rCASC: reproducible classification analysis of single-cell sequencing data

Evaluating stably expressed genes in single cells

A field guide for the compositional analysis of any-omics data