pipeline-structural-variation
Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data (by nanoporetech)
pepper
PEPPER-Margin-DeepVariant (by kishwarshafin)
| pipeline-structural-variation | pepper | |
|---|---|---|
| 1 | 1 | |
| 87 | 230 | |
| - | - | |
| 1.6 | 0.0 | |
| over 2 years ago | 4 months ago | |
| Python | Python | |
| GNU General Public License v3.0 or later | MIT License |
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
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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.
pipeline-structural-variation
Posts with mentions or reviews of pipeline-structural-variation.
We have used some of these posts to build our list of alternatives
and similar projects.
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Help with Nanopore sequencing information and resources for gross chromosomal rearrangement analysis
Regarding analysis, I would suggest reading papers that use nanopore sequencing to identify structural variants and to read their method section. This can be on any species really, the approach is the same between them. A standard workflow can be found on ONT's github and on their EPI2ME labs platform (the github one is the most recent and up-to-date).
pepper
Posts with mentions or reviews of pepper.
We have used some of these posts to build our list of alternatives
and similar projects.
What are some alternatives?
When comparing pipeline-structural-variation and pepper you can also consider the following projects:
bonito - A PyTorch Basecaller for Oxford Nanopore Reads
Clairvoyante - Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing
Pipeliner - An open-source and scalable solution to NGS analysis powered by the NIH's Biowulf cluster.
Sniffles - Structural variation caller using third generation sequencing
edgecase - A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, and for haplotype inference.