pepper VS NanoSim

Compare pepper vs NanoSim and see what are their differences.

pepper

PEPPER-Margin-DeepVariant (by kishwarshafin)
nanopore long-reads oxford-nanopore variant-calling genome-variation assembly-polishing pacbio-ccs Variants
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NanoSim

Nanopore sequence read simulator (by bcgsc)
Genome transcriptome Simulator oxford-nanopore nanopore-sequencing
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pepper NanoSim
1 1
231 213
- 0.9%
0.0 5.6
4 months ago 3 months ago
Python Python
MIT License GNU General Public License v3.0 or later
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.

pepper

Posts with mentions or reviews of pepper. We have used some of these posts to build our list of alternatives and similar projects.

NanoSim

Posts with mentions or reviews of NanoSim. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2021-06-26.
  • Raw nanowire sequencer data
    2 projects | /r/bioinformatics | 26 Jun 2021
    Alternatively, you can make your own data using NanoSim. I haven't used it myself yet but it generates signal level files with similar error profiles to the real thing. https://github.com/bcgsc/NanoSim

What are some alternatives?

When comparing pepper and NanoSim you can also consider the following projects:

Clairvoyante - Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing

bonito - A PyTorch Basecaller for Oxford Nanopore Reads

pipeline-structural-variation - Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data

bioinformatics - Bioinformatic algorithms for the UCLA Bioinformatics Specialization

pepper vs Clairvoyante NanoSim vs bonito pepper vs pipeline-structural-variation NanoSim vs bioinformatics