atac-seq-pipeline
ENCODE ATAC-seq pipeline (by ENCODE-DCC)
atacseq
ATAC-seq peak-calling and QC analysis pipeline (by nf-core)
| atac-seq-pipeline | atacseq | |
|---|---|---|
| 2 | 2 | |
| 370 | 162 | |
| 3.0% | 3.1% | |
| 6.0 | 7.0 | |
| 3 months ago | 16 days ago | |
| Python | Nextflow | |
| 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.
atac-seq-pipeline
Posts with mentions or reviews of atac-seq-pipeline.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-02-25.
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Pipeline to analyze ATAC seq
Link to the ENCODE pipeline: https://github.com/ENCODE-DCC/atac-seq-pipeline
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Transcription Start Site enrichment for bulk ATACseq
Also check encode definition for this. I find encode to be a gold standard for this type of stuff. Check out their github for ATACseq and look for the TSS enrichment steps (as always, make sure to take the time to understand each step).
atacseq
Posts with mentions or reviews of atacseq.
We have used some of these posts to build our list of alternatives
and similar projects. The last one was on 2023-02-25.
What are some alternatives?
When comparing atac-seq-pipeline and atacseq you can also consider the following projects:
Pipeliner - An open-source and scalable solution to NGS analysis powered by the NIH's Biowulf cluster.
methylclock - DNA methylation-based clocks
rnaseq - RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
AltumAge
eager - A fully reproducible and state-of-the-art ancient DNA analysis pipeline
patterns - A curated collection of Nextflow implementation patterns
Aging - Epigenomic enrichment analysis of age-related genomic regions
MouseEpigeneticClock
hlatyping - Precision HLA typing from next-generation sequencing data
chipseq - ChIP-seq peak-calling, QC and differential analysis pipeline.