rna-seq-kallisto-sleuth
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth. (by snakemake-workflows)
clustifyr
Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets (by rnabioco)
| rna-seq-kallisto-sleuth | clustifyr | |
|---|---|---|
| 1 | 1 | |
| 63 | 101 | |
| - | 0.0% | |
| 5.9 | 4.9 | |
| 20 days ago | 22 days ago | |
| Python | R | |
| MIT License | 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.
rna-seq-kallisto-sleuth
Posts with mentions or reviews of rna-seq-kallisto-sleuth.
We have used some of these posts to build our list of alternatives
and similar projects.
-
qiime2 but for RNAseq data?
(repo is here: https://github.com/snakemake-workflows/rna-seq-kallisto-sleuth)
clustifyr
Posts with mentions or reviews of clustifyr.
We have used some of these posts to build our list of alternatives
and similar projects.
-
Compare specific clusters across condition in scRNA-seq
You can use the package clustifyr in r with seurat and use a known data set that has already been identified. It will give you a correlation matrix to define how close your “unknown” cluster is to a already identified cluster. However this all depends on if you have a good reference data set clustifyr
What are some alternatives?
When comparing rna-seq-kallisto-sleuth and clustifyr you can also consider the following projects:
bambu - Reference-guided transcript discovery and quantification for long read RNA-Seq data
drake - An R-focused pipeline toolkit for reproducibility and high-performance computing
biomisc_R - command line bioinformatic scripts written in R
reprex - Render bits of R code for sharing, e.g., on GitHub or StackOverflow.
targets - Function-oriented Make-like declarative workflows for R
wiggleplotr - A small R package to make sequencing read coverage plots in R.
hecatomb - hecatomb is a virome analysis pipeline for analysis of Illumina sequence data