how_are_we_stranded_here
Check strandedness of RNA-Seq fastq files (by signalbash)
rnaseqc
Fast, efficient RNA-Seq metrics for quality control and process optimization (by getzlab)
| how_are_we_stranded_here | rnaseqc | |
|---|---|---|
| 1 | 1 | |
| 107 | 142 | |
| - | 1.4% | |
| 0.0 | 4.5 | |
| almost 2 years ago | about 2 months ago | |
| Python | C++ | |
| 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.
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.
how_are_we_stranded_here
Posts with mentions or reviews of how_are_we_stranded_here.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-10-08.
-
Tools for strand direction detection RNA-Seq
Piggybacking off this comment to share the link that worked for me (yours landed me on a 404): https://github.com/signalbash/how_are_we_stranded_here
rnaseqc
Posts with mentions or reviews of rnaseqc.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2022-10-08.
-
Tools for strand direction detection RNA-Seq
I like to use RNA-SeQC (https://github.com/getzlab/rnaseqc). It shows the percentage of forward/reverse reads that alingned to either the sense or antisense strands. It is also compatible with multiQC which is a big plus.
What are some alternatives?
When comparing how_are_we_stranded_here and rnaseqc you can also consider the following projects:
rnaseq - RNA-seq analyses.
salmon - 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
TPMCalculator - TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
popscle - A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and auxilary tools