ggcoverage
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showteeth
Visualize and annotate genomic coverage with ggplot2
**1）读取的gff文件需要包含哪些基因信息，才能正常绘制？** 原本用烟草参考基因组注释文件画图时会报错： ```R > basic.coverage + geom_gene(gtf.gr = gtf.gr) Error in `dplyr::select()`: ! Can't subset columns that don't exist. ✖ Column `gene_type` doesn't exist. Run `rlang::last_error()` to see where the...
- when trying to look into the issue #9 it became clear that LoadTrackFile is not very flexible - many defaults are explicit for examples or human chromosomes in general...
Hi, This looks very useful but from all the examples it seems the package focuses mostly on eukaryotic omic data? I wanted to use this for bacterial genomes, to generate...
I am trying to load the Arabidopsis annotation of https://www.arabidopsis.org/download_files/Genes/TAIR10_genome_release/TAIR10_gff3/TAIR10_GFF3_genes_transposons.gff I have converted the file to GTF with AGAT and changed the feature names "Name" to "gene_name" and "Note" to...
This is current R CMD CHECK result when the main errors are fixed (see latest open PR): ``` ==> devtools::check() ══ Documenting ════════════════════════════════════════════ ℹ Updating ggcoverage documentation Registered S3 method...
Hi, I've just tried your package and like the idea, but I'm running into an issue with overlapping gene names. I'm trying to visualise copy number changes over medium-sized regions...
Hello, I have installed the ggcoverage and currently testing this package running ggcoverage() examples. But the problem arose when I wanted to draw an ideogram, here's the error message: Loading...
suggestion: all plotting functions should accept builtin R objects as data, not paths to local files
- right now many `geom_` functions use a link to an external file and load data themself - importing and formatting data should be separated from plotting - plotting functions...