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seqminer
View on CRAN: Click
here
Download and install seqminer package within the R console
Install from CRAN:
install.packages("seqminer")
Install from Github:
library("remotes")
install_github("cran/seqminer")
Install by package version:
library("remotes")
install_version("seqminer", "9.7")
Attach the package and use:
library("seqminer")
Maintained by
Xiaowei Zhan
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.seqminer . https://github.com/zhanxw/seqminer/issues . http://zhanxw.github.io/seqminer/ . seqminer citation info . seqminer results . seqminer.pdf . seqminer_9.7.tar.gz . seqminer_9.7.zip . seqminer_9.7.zip . seqminer_9.7.zip . seqminer_9.7.tgz . seqminer_9.7.tgz . seqminer_9.7.tgz . seqminer_9.7.tgz . seqminer archive . https://CRAN.R-project.org/package=seqminer .
First Published: 2013-03-20
Latest Update: 2023-09-02
Description:
Integrate sequencing data (Variant call format, e.g. VCF or BCF) or meta-analysis results in R. This package can help you (1) read VCF/BCF/BGEN files by chromosomal ranges (e.g. 1:100-200); (2) read RareMETAL summary statistics files; (3) read tables from a tabix-indexed files; (4) annotate VCF/BCF files; (5) create customized workflow based on Makefile.
How to cite:
Xiaowei Zhan (2013). seqminer: Efficiently Read Sequence Data (VCF Format, BCF Format, METAL Format and BGEN Format) into R. R package version 9.7, https://cran.r-project.org/web/packages/seqminer. Accessed 22 Apr. 2025.
Previous versions and publish date:
0.1 (2013-03-20 17:18), 0.2 (2013-04-01 08:00), 0.3 (2013-04-13 06:52), 0.5 (2013-05-28 22:40), 0.7 (2013-07-29 21:30), 1.0 (2013-09-04 23:43), 1.3 (2013-09-26 20:56), 1.4 (2013-09-29 08:04), 1.9.1 (2013-11-15 11:00), 1.9 (2013-11-11 08:32), 2.0 (2013-11-20 10:02), 2.2 (2014-01-27 10:58), 2.7 (2014-04-14 18:37), 3.0 (2014-04-19 08:50), 3.1 (2014-05-07 12:37), 3.4 (2014-12-08 07:38), 3.7 (2015-05-16 09:52), 3.9 (2015-05-21 11:04), 4.2 (2015-06-10 11:28), 4.5 (2015-06-29 07:51), 4.7 (2015-08-19 00:20), 4.9 (2015-09-16 19:55), 5.0 (2015-10-22 08:24), 5.2 (2016-05-03 08:26), 5.3 (2016-05-07 09:00), 5.7 (2017-01-13 13:08), 5.9 (2017-04-18 07:24), 6.0 (2017-05-05 19:43), 6.1 (2018-08-02 19:20), 6.7 (2018-12-06 23:10), 7.0 (2019-01-07 01:00), 7.1 (2019-01-08 16:20), 8.0 (2020-03-02 13:10), 8.2 (2021-11-09 11:20), 8.4 (2022-02-07 09:20), 8.5 (2022-11-15 19:20), 8.6 (2023-01-26 15:20), 8.9 (2023-04-07 19:40), 9.1 (2023-09-02 08:50), 9.3 (2023-11-28 10:10), 9.4 (2024-02-03 18:30)
Other packages that cited seqminer R package
View seqminer citation profile
Other R packages that seqminer depends,
imports, suggests or enhances
Complete documentation for seqminer
Functions, R codes and Examples using
the seqminer R package
Some associated functions: SEQMINER . addJob . annotateGene . annotatePlain . annotateVcf . createSingleChromosomeBCFIndex . createSingleChromosomeVCFIndex . download.annotation.resource . getCovPair . getRefBase . hasIndex . isDirWritable . isInRange . isTabixRange . isURL . makeAnnotationParameter . newJob . newWorkflow . openPlink . readBGENToListByGene . readBGENToListByRange . readBGENToMatrixByGene . readBGENToMatrixByRange . readPlinkToMatrixByIndex . readSingleChromosomeBCFToMatrixByRange . readSingleChromosomeVCFToMatrixByRange . readVCFToListByGene . readVCFToListByRange . readVCFToMatrixByGene . readVCFToMatrixByRange . rvmeta.readCovByRange . rvmeta.readDataByGene . rvmeta.readDataByRange . rvmeta.readNullModel . rvmeta.readScoreByRange . rvmeta.readSkewByRange . rvmeta.writeCovData . rvmeta.writeScoreData . sub-.PlinkFile . tabix.createIndex.meta . tabix.createIndex . tabix.createIndex.vcf . tabix.read.header . tabix.read . tabix.read.table . validateAnnotationParameter . verifyFilename . writeWorkflow .
Some associated R codes: genMakefile.R . seqminer.R . Full seqminer package functions and examples
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