ggtranscript
Visualizing transcript structure and annotation using ggplot2 (by dzhang32)
wiggleplotr
A small R package to make sequencing read coverage plots in R. (by kauralasoo)
ggtranscript | wiggleplotr | |
---|---|---|
1 | 1 | |
118 | 33 | |
- | - | |
10.0 | 10.0 | |
almost 2 years ago | almost 2 years ago | |
R | R | |
GNU General Public License v3.0 or later | Apache License 2.0 |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.
ggtranscript
Posts with mentions or reviews of ggtranscript.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-03-03.
-
representing gene/transcript layout with variants, suitable approaches?
https://github.com/dzhang32/ggtranscript and https://github.com/kauralasoo/wiggleplotr look like good starting points, and since they output ggplot objects you can add some layers (like geom_segment or other geometries, and ggrepel for labels) to annotate them. Otherwise you can go the "from scratch" route using ggplot with some polygons and segments.
wiggleplotr
Posts with mentions or reviews of wiggleplotr.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-03-03.
-
representing gene/transcript layout with variants, suitable approaches?
https://github.com/dzhang32/ggtranscript and https://github.com/kauralasoo/wiggleplotr look like good starting points, and since they output ggplot objects you can add some layers (like geom_segment or other geometries, and ggrepel for labels) to annotate them. Otherwise you can go the "from scratch" route using ggplot with some polygons and segments.
What are some alternatives?
When comparing ggtranscript and wiggleplotr you can also consider the following projects:
ggpointdensity - :chart_with_upwards_trend: :bar_chart: Introduces geom_pointdensity(): A Cross Between a Scatter Plot and a 2D Density Plot.
rna-seq-kallisto-sleuth - A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.