MicrobiomeStat
dada2
| MicrobiomeStat | dada2 | |
|---|---|---|
| 1 | 1 | |
| 24 | 452 | |
| - | - | |
| 9.7 | 4.3 | |
| 10 days ago | 4 months ago | |
| R | R | |
| - | GNU Lesser General Public License v3.0 only |
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MicrobiomeStat
dada2
-
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?
lmtp - :package: Non-parametric Causal Effects Based on Modified Treatment Policies :crystal_ball:
kraken-biom - Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).
sjPlot - sjPlot - Data Visualization for Statistics in Social Science
GTDBTk - GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
empress - A fast and scalable phylogenetic tree viewer for microbiome data analysis
TCGAbiolinks - TCGAbiolinks
tableone - R package to create "Table 1", description of baseline characteristics with or without propensity score weighting
rBLAST - Interface for the Basic Local Alignment Search Tool (BLAST) - R-Package
easystats - :milky_way: The R easystats-project
MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite
renjin - JVM-based interpreter for the R language for the statistical analysis.