BioPython_Scripts
BioPython scripts for conversion of GBK files or DNA-based FASTA files to protein FASTA files (by PNNL-Comp-Mass-Spec)
orfipy
Fast and flexible ORF finder (by urmi-21)
| BioPython_Scripts | orfipy | |
|---|---|---|
| 1 | 2 | |
| 1 | 46 | |
| - | - | |
| 0.0 | 1.8 | |
| over 6 years ago | over 2 years ago | |
| Python | Python | |
| - | 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.
BioPython_Scripts
Posts with mentions or reviews of BioPython_Scripts.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2021-08-08.
orfipy
Posts with mentions or reviews of orfipy.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2021-08-08.
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Looking for a tool to convert a whole fasta file with CDS sequences to a fasta file with protein sequences.
You can probably use or adapt https://github.com/urmi-21/orfipy. I've never used this but it looks fantastic.
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Question about ORF finder
You don't need any specific hardware to run most bioinformatics programs. There is a web application of ORF finder and if you want to run large amounts of analyses you probably want to run them in a Linux environment. Look at Windows Subsystem for Linux if you are a Windows user. You may also be interested in new ORF finders like this one: https://github.com/urmi-21/orfipy
What are some alternatives?
When comparing BioPython_Scripts and orfipy you can also consider the following projects:
Biopython - Official git repository for Biopython (originally converted from CVS)
galaxy - Data intensive science for everyone.
pyrodigal - Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
reCOGnizer - A tool for domain based annotation with databases from the Conserved Domains Database