Evidence map›Paper›PMID 31667383›Full record

ArticleHeliyon2019

PVCTools: parallel variation calling tools.

Jingjing Jin, Jiajun Liu, Yelin Yin, Zefeng Li, Peng Lu, Yalong Xu, Jianfeng Zhang, Peijian Cao, Dasha Hu

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Heliyon, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

Jingjing JinChina Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of CNTC, Zhengzhou, 450001, China.
Jiajun LiuComputer Science and Technology, Sichuan University, Chengdu, 450000, China.
Yelin YinZhengzhou Tongbiao Environmental Testing Co., LTD, Zhengzhou, 450001, China.
Zefeng LiChina Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of CNTC, Zhengzhou, 450001, China.
Peng LuChina Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of CNTC, Zhengzhou, 450001, China.
Yalong XuChina Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of CNTC, Zhengzhou, 450001, China.
Jianfeng ZhangChina Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of CNTC, Zhengzhou, 450001, China.
Peijian CaoChina Tobacco Gene Research Center, Zhengzhou Tobacco Research Institute of CNTC, Zhengzhou, 450001, China.
Dasha HuComputer Science and Technology, Sichuan University, Chengdu, 450000, China.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

As the development of sequencing technology, it is now possible to sequence individuals of each species. Although a number of different tools have been developed to detect individual variations, most of them cannot be run in parallel modes. To accelerate variation detection, PVCTools is introduced in this study. PVCTools splits the reference genome and alignment files into small pieces and runs them in parallel mode. Meanwhile, boundary noise is also considered in PVCTools. From the result of three different sets of test data, PVCTools performs much faster than most other current tools. At the same time, it keeps similar accuracy with other tools. PVCTools is free and open source software. The development of sequencing technology and growing sample numbers will make performance improvements such as PVCTools increasingly interesting.

Indexed as

BioinformaticsGeneticsParallelPlant biologySequencingSystems biologyTranscriptomicsVariation

Identifiers

PMID31667383
PMCPMC6812194

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.