CAFE was developed in a Linux environment (CentOS 6.8). Cufflinks, SAMtools, Perl, and Python 2.7 are required to run this program.
This work is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License.
|BIGTranscriptome||ENCODE, Human BodyMap 2.0, and GEO (112 RNA-seqs from 35 cell-types and tissues)||gtf||download|
|BIGTranscriptome-TS||GTEx and TCGA (4,821 RNA-seqs from 19 tissues and tumors)||gtf||download|
|BIGTranscriptome lncRNA catalog||Known and novel lncRNAs annotated from BIGTranscriptome||gtf||download|
RPDs (the reads with predicted directions) files are available at the following link.
Expression values (read count) quantified from RPD BAM files are available at the following link.