Tag: circular RNA

Circall v0.1.0 – Discovery of Circular RNAs from Paired-end RNA-sequencing data

Circall v0.1.0

:: DESCRIPTION

Circall is a novel method for fast and accurate discovery of circular RNAs from paired-end RNA-sequencing data.

::DEVELOPER

Dat T Nguyen

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • R

:: DOWNLOAD

Circall

:: MORE INFORMATION

Citation

Nguyen DT, Trac QT, Nguyen TH, Nguyen HN, Ohad N, Pawitan Y, Vu TN.
Circall: fast and accurate methodology for discovery of circular RNAs from paired-end RNA-sequencing data.
BMC Bioinformatics. 2021 Oct 13;22(1):495. doi: 10.1186/s12859-021-04418-8. PMID: 34645386; PMCID: PMC8513298.

FUCHS 0.3.0 – FUll circular RNA CHaracterization from RNA-Seq

FUCHS 0.3.0

:: DESCRIPTION

FUCHS is a python pipeline designed to fully characterize circular RNAs. It uses a list of circular RNAs and reads spanning the back-splice junction as well as a BAM file containing the mapping of all reads (alternatively of all chimeric reads).

::DEVELOPER

Dieterich lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux
  • Python

:: DOWNLOAD

FUCHS

:: MORE INFORMATION

Citation

Metge F, Czaja-Hasse LF, Reinhardt R, Dieterich C.
FUCHS-towards full circular RNA characterization using RNAseq.
PeerJ. 2017 Feb 28;5:e2934. doi: 10.7717/peerj.2934. PMID: 28265491; PMCID: PMC5333540.

CIRCTOOLS 1.2.0 – a one-stop software solution for circular RNA research

CIRCTOOLS 1.2.0

:: DESCRIPTION

circtools is a modular, Python3-based framework for circRNA-related tools that unifies several functionalities in single command line driven software.

::DEVELOPER

Dieterich lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux
  • Python

:: DOWNLOAD

CIRCTOOLS

:: MORE INFORMATION

Citation

Jakobi T, Uvarovskii A, Dieterich C.
circtools-a one-stop software solution for circular RNA research.
Bioinformatics. 2019 Jul 1;35(13):2326-2328. doi: 10.1093/bioinformatics/bty948. PMID: 30462173; PMCID: PMC6596886.