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OliveiraDS-hub / ChimeraTE

A pipeline to detect chimeric transcripts derived from genes and transposable elements.
GNU General Public License v3.0
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Example Data Mode 1 #21

Open albertgarciandres opened 4 months ago

albertgarciandres commented 4 months ago

Example Data Mode 1

Really minor changes regarding this section.

The #One-line command is correct, however the #Multi-line command has files that are not present. The --te parameter has the file dmel_5TEs_sample.gtf which does not exist in the example_data folder as well as the --gene parameter with the dmel_5genes_sample.gtf file that is not present.

The corrected code should look as follows:

#Multi-line
python3 chimTE_mode1.py --genome example_data/mode1/dmel_genome_sample.fa \
--input example_data/mode1/input_mode1.tsv \
--project example_mode1 \
--te example_data/mode1/dmel_TEs_sample.gtf \
--gene example_data/mode1/dmel_genes_sample.gtf \
--strand rf-stranded

Hope it helps,

Albert