summary.feature_tbl | R Documentation |
Show count min and max of features by type
Plot genes as rectangles followed by names. Stagger genes for easy reading. Written original by Dan Gatti 2013-02-13
## S3 method for class 'feature_tbl'
summary(object, major = TRUE, ...)
## S3 method for class 'feature_tbl'
subset(x, start_val = 0, stop_val = max(x$stop), ...)
ggplot_feature_tbl(
object,
rect_col = "grey70",
strand_col = c(`-` = "#1b9e77", `+` = "#d95f02"),
type_col = c(gene = "black", pseudogene = "#1b9e77", other = "#d95f02"),
text_size = 3,
xlim = NULL,
snp_pos = top_snps_tbl$pos,
snp_lod = top_snps_tbl$lod,
top_snps_tbl = NULL,
snp_col = "grey70",
extend = 0.005,
...
)
## S3 method for class 'feature_tbl'
autoplot(object, ...)
object |
tbl of gene information from |
major |
if |
... |
additional arguments (not used) |
x |
tbl of feature information from |
start_val, stop_val |
start and stop positions for subset |
rect_col |
fill color of rectangle (default "grey70") |
strand_col |
edge color of rectangle by strand from |
type_col |
color of type from |
text_size |
size of text (default 3) |
xlim |
horizontal axis limits (default is range of features) |
snp_pos |
position of SNPs in bp if used (default NULL) |
snp_lod |
LOD of SNPs (for color plotting) |
top_snps_tbl |
table from |
snp_col |
color of SNP vertical lines (default "grey70") |
extend |
extend region for SNPs in bp (default 0.005) |
tbl of feature summaries by type
tbl of feature summaries by type
data frame of gene information (invisible)
Brian S Yandell, brian.yandell@wisc.edu
Brian S Yandell, brian.yandell@wisc.edu Daniel Gatti, Dan.Gatti@jax.org
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