ArticlePeerJ2023
kakapo: easy extraction and annotation of genes from raw RNA-seq reads.
Article in PeerJ, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
6 citing papers in PubMed.
- Identification of a candidate self-incompatibility locus in beet (Beta vulgaris).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Herbaria provide a valuable resource for obtaining informative mRNA.Genome research · 2026Article
- Rapid detection of RNase-based self-incompatibility in Lysimachia monelli (Primulaceae).American journal of botany · 2025Article
- Semblans: automated assembly and processing of RNA-seq data.Bioinformatics (Oxford, England) · 2024Article
- Transcriptome data from silica-preserved leaf tissue reveal gene flow patterns in a Caribbean bromeliad.Annals of botany · 2024Article
- Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
kakapo (kākāpō) is a Python-based pipeline that allows users to extract and assemble one or more specified genes or gene families. It flexibly uses original RNA-seq read or GenBank SRA accession inputs without performing global assembly of entire transcriptomes or metatranscriptomes. The pipeline identifies open reading frames in the assembled gene transcripts and annotates them. It optionally filters raw reads for ribosomal, plastid, and mitochondrial reads, or reads belonging to non-target organisms (
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.