OliveiraDS-hub / ChimeraTE

A pipeline to detect chimeric transcripts derived from genes and transposable elements.

OliveiraDS-hub/ChimeraTE Issues

How can I convert the counts of chimera transcripts into FPKM or TPM?
Updated 4 months ago
Example Data Mode 1
Updated 6 months ago
Warning meassage in mode 2: Unable to calculate gene expression!
Updated 8 months ago1
Errors in merging coverage from different isoforms with mode2
Closed 8 months ago5
Detect only TE initiated transcripts
Closed 8 months ago2
Problems with mode2 chimeraTE
Closed 8 months ago4
Bowtie2 Alignment runs very long
Closed 8 months ago4
Error regarding TE and gene gtf files (?) when running mode 1
Closed 10 months ago2
Mode_2 trouble
Closed a year ago5
TE transcripts fasta file needed to Mode 2.
Closed a year ago2
Conda Download Error from .yml file
Closed a year ago2
ValueError arose after Rep1 and 2 analysis
Closed a year ago6
samtools index: failed to create index, Numerical result out of range
Closed a year ago6
Error with bedfile
Closed a year ago2
Analysis with unstranded data
Closed a year ago1
How to understand the meaning of exonized_type?
Closed a year ago3
Questions while install the ChimeraTE
Closed a year ago8
ChimeraTE Mode 1 with bam files
Closed a year ago7
chimTE_mode1.py file not found
Closed 2 years ago3
how to get this file --ref_TEs species database used by RepeatMasker
Closed 2 years ago4
can't find script of mode2 (transcripts_IDs_NCBI.sh)
Closed 2 years ago1