RECLU protocols

View RECLU computational protocol

RECLU statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.


Citations per year

Citations chart

Popular tool citations

chevron_left TSS detection Tag count clustering chevron_right
Popular tools chart

Tool usage distribution map

Tool usage distribution map

Associated diseases

Associated diseases

RECLU specifications


Unique identifier OMICS_07114
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++, Perl, R, Shell (Bash)
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
SAMtools, BEDtools
Maintained Yes


Add your version

Publication for RECLU

RECLU in pipeline

PMCID: 4686964
PMID: 26689777
DOI: 10.1371/journal.pone.0144677

[…] respectively. the remaining reads were mapped to s. pombe reference genome using bwa []. cage read clustering, differential gene expression analysis and motif discovery were performed by reclu ver3.1 pipeline (, integrated into maser (national institute of genetics; […]

To access a full list of citations, you will need to upgrade to our premium service.

RECLU in publications

PMCID: 5578634
PMID: 28859164
DOI: 10.1371/journal.pone.0184185

[…] were mapped to rat reference genomes using the tophat2 software after discarding the ribosomal and non-a/c/g/t base-containing rnas []. for tag clustering, the cage-tag 5’-coordinates were input for reclu clustering, with a maximum irreproducible discovery rate (idr) of 0.1 and a minimum tags per million (tpm) value [], followed by differential expression and motif discovery analyses. the r […]

PMCID: 5355146
PMID: 28099924
DOI: 10.18632/oncotarget.14681

[…] cage tags were mapped to the mouse mm9 genomes using bwa software (v0.5.9) after discarding ribosomal or non-a/c/g/t base-containing rnas. for tag clustering, cage-tag 5′ coordinates were input for reclu clustering, with a maxmum irreproducible discovery rate of (idr) 0.1 and minimum tags per million (tpm) value of 0.1 [, ], genes were filtered into the rb inactivation signature if their tpm […]

PMCID: 4862234
PMID: 27160403
DOI: 10.1186/s40478-016-0318-3

[…] enough for further analyses (table ). then, profiling differentially expressing genes (peaks in rna sequence mapped to the reference genome) between experimental groups was obtained by a pipeline, reclu []. here, the reclu pipeline extracted two types of clusters, top peaks and bottom ones []. briefly, top peaks or bottom ones represent the narrowest or broadest reproducible peaks in an rna […]

To access a full list of publications, you will need to upgrade to our premium service.

RECLU institution(s)
RIKEN Center for Life Science Technologies (CLST), Division of Genomic Technologies, RIKEN Yokohama Institute, Tsurumi-ku, Yokohama, Japan

RECLU reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review RECLU