seqinr
Biological sequences retrieval and analysis (by lbbe-software)
dada2
Accurate sample inference from amplicon data with single nucleotide resolution (by benjjneb)
seqinr | dada2 | |
---|---|---|
1 | 1 | |
2 | 455 | |
- | - | |
6.5 | 4.3 | |
about 2 months ago | 4 months ago | |
R | R | |
GPL-2 | GNU Lesser General Public License v3.0 only |
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.
seqinr
Posts with mentions or reviews of seqinr.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2024-05-05.
-
protr VS seqinr - a user suggested alternative
2 projects | 5 May 2024
dada2
Posts with mentions or reviews of dada2.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Error model generation and subsequent steps in DADA2 pipeline for multiple sequencing runs
It is recommended to process each run separately (https://github.com/benjjneb/dada2/issues/1177). Each flow cell behaves differently, so the error model for one might not work well for another run. You can merge them together once you have your sequence table.
What are some alternatives?
When comparing seqinr and dada2 you can also consider the following projects:
kraken-biom - Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).
GTDBTk - GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
TCGAbiolinks - TCGAbiolinks
rBLAST - Interface for the Basic Local Alignment Search Tool (BLAST) - R-Package
MicrobiomeStat - Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite