miARma-Seq
miARma is a fully customizable pipeline for NGS transcriptome analyses. Including gene/transcripts, miRNAs and circRNAs expression measurements.
Basic Information
| Repository | https://github.com/eandresleon/miARma-seq |
| Documentation | https://github.com/eandresleon/miARma-seq/blob/main/mRNA_miARma_doc_1.1.pdf |
| Seminar | Eduardo Andrés León presents the tool miARma-Seq |
| Main publication (DOI) |
10.1038/srep25749
view 10.1016/j.ymeth.2018.09.002 view |
| Contact email | eduardo.andres@csic.es |
| Authors/Maintainers | Eduardo Andrés-León |
| Type of application | Command line pipeline |
| Programming languages | RBASH / ShellPerl |
| Keywords | Omics, Transcriptomics, RNA Sequencing (RNA-seq), Expression Profiling |
Technical details
| Input file formats | sam, bam, gff, gtf, Other |
| Output file formats | tsv, html, pdf |
| Software compatibility | Linux, Mac |
| Hardware requirements | |
| Type of containerization | Docker, None |
| Wrapper type | None |
| Compatible tools | miRGate |
| Funding resource | Institutional funding |
| Funding support | No funding |
Statistics
| Unique users (last 12 months) | <100 |
| Unique users (since first release) | 100-1000 |
| Software downloads (last 12 months) | <100 |
| Software downloads (since first release) | 1000-10000 |
| Jobs submitted (last 12 months) | 100-1000 |
| Jobs submitted (since first release) | 100-1000 |
| Repository clones (last 12 months) | <100 |
| Repository clones (since first release) | <100 |
| Citations (last 12 months) | <100 (~3 as of 15/10/2026) |
| Citations (since first release) | 100-1000 (139 as of 15/10/2026) |
| Early-stage researcher effort (development) | |
| Early-stage researcher effort (maintenance) | |
| Technician-supported effort (development) | |
| Technician-supported effort (maintenance) | |
| Other effort (development) | |
| Other effort (maintenance) | |
| Total effort (development) | |
| Total effort (maintenance) |