Package: seqminer 9.7
seqminer: Efficiently Read Sequence Data (VCF Format, BCF Format, METAL Format and BGEN Format) into R
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.
Authors:
seqminer_9.7.tar.gz
seqminer_9.7.tar.gz(r-4.5-noble)seqminer_9.7.tar.gz(r-4.4-noble)
seqminer.pdf |seqminer.html✨
seqminer/json (API)
# Install 'seqminer' in R: |
install.packages('seqminer', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/zhanxw/seqminer/issues
Last updated 2 months agofrom:50eb26ef79. Checks:OK: 2. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Dec 02 2024 |
R-4.5-linux-x86_64 | OK | Dec 02 2024 |
Exports:addJobannotateGeneannotatePlainannotateVcfcreateSingleChromosomeBCFIndexcreateSingleChromosomeVCFIndexdownload.annotation.resourcegetRefBaseisInRangeisTabixRangemakeAnnotationParameternewJobnewWorkflowopenPlinkreadBGENToListByGenereadBGENToListByRangereadBGENToMatrixByGenereadBGENToMatrixByRangereadPlinkToMatrixByIndexreadSingleChromosomeBCFToMatrixByRangereadSingleChromosomeVCFToMatrixByRangereadVCFToListByGenereadVCFToListByRangereadVCFToMatrixByGenereadVCFToMatrixByRangervmeta.readCovByRangervmeta.readDataByGenervmeta.readDataByRangervmeta.readNullModelrvmeta.readScoreByRangervmeta.readSkewByRangervmeta.writeCovDatarvmeta.writeScoreDatatabix.createIndextabix.createIndex.metatabix.createIndex.vcftabix.readtabix.read.headertabix.read.tablevalidateAnnotationParameterwriteWorkflow
Dependencies: