ipyigv
A Jupyter wrapper for the igv.js library (representation of genomic data) (by jupyter-widgets-contrib)
pybamview
Browser based application for viewing bam alignments (by mgymrek)
ipyigv | pybamview | |
---|---|---|
1 | 1 | |
26 | 56 | |
- | - | |
10.0 | 10.0 | |
over 3 years ago | over 7 years ago | |
Python | Python | |
BSD 3-clause "New" or "Revised" License | MIT License |
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.
ipyigv
Posts with mentions or reviews of ipyigv.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-06-30.
-
Bam viewer with custom fasta reference that's embeddable in Streamlit app?
ipyigv is the lower level version of these. I found no documentation on how it's supposed to be used, but I'll try to get it to work as a last option, maybe raising a new webserver\docker container and supplying the files to it.
pybamview
Posts with mentions or reviews of pybamview.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-06-30.
-
Bam viewer with custom fasta reference that's embeddable in Streamlit app?
pybamview is very old, requires python 2.6 and doesen't provide and API, so it requires CLI calls to be performed from my scripts.
What are some alternatives?
When comparing ipyigv and pybamview you can also consider the following projects:
tinycov - Command line tool to plot genomic coverage from a BAM file
igv-jupyter - Extension for Jupyter which integrates igv.js
igv-notebook - Module for embedding igv.js in an IPython notebook
dash-bio - Open-source bioinformatics components for Dash