HTTPS SSH
# circ

Circular RNA detection against known boundaries

Disclaimer: circ has been discontinued

# Generation of an annotated database of circular-compliant boundaries

- circulars_database_build.py boundaries' build upon published data (circbase)

# Test runs on publicly available data (total RNA, even polyA RNA in some cases) were carried out with different mappers

## bowtie

- htc_total_tests_bowtie.sh
- bowtie_based_recomputation.sh

## tophat

- tophat_fusion_anchor_length_test.sh
- tophat_positive_control.sh
- redesign_on_tophat_and_different_databases.sh
- tophat_tests.sh

## blast

- htc_total_blast_based_checks.sh
- blast_based.sh

# Runs modifying third party soft:

## CIRI (https://doi.org/10.1186/s13059-014-0571-3) runs were also evaluated

- test.sh
- third_party/

## Memczak's paper (https://doi.org/10.1038/nature11928)

- memczak-based/

# Utils

- bam_to_fasta.py
- ribosomal_mapper.sh

# Project log

circ has no releases and has been discontinued

started Wed Sep 10 11:23:25 CEST 2014
closed Tue Jan 31 08:25:04 CET 2017