TrEMOLO is a bioinformatics tool dedicated to the detection of transposable elements movements using long reads.

This dataverse contains all the data that we used for the TrEMOLO paper: the simulated dataset, the source code of TrEMOLO as well as all the accessory codes.

"TrEMOLO: Accurate transposable element allele frequency estimation using long-read sequencing data combining assembly and mapping-based approaches". Mohamed Mourdas, Sabot François, Varoqui Marion, Mugat Bruno, Audouin Katell, Pélisson Alain, Fiston-Lavier Anna-Sophie, Chambeyron Séverine. bioRxiv 2022.07.21.500944; doi: https://doi.org/10.1101/2022.07.21.500944
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2.3-beta1 version of TrEMOLO
Oct 10, 2023
MOHAMED, Mourdas, 2023, "2.3-beta1 version of TrEMOLO", https://doi.org/10.23708/IEL4HY, DataSuds, V1
New version of TrEMOLO
v2.2-beta1 version used for the publication data of TrEMOLO
Dec 19, 2022
SABOT, Francois; MOHAMED, Mourdas, 2022, "v2.2-beta1 version used for the publication data of TrEMOLO", https://doi.org/10.23708/2FYBUL, DataSuds, V2
This dataset is the locked software version used for the publication of TrEMOLO. It represents the v2.2-beta1 version
Replication data for simulated reads for S1, S2 and S3 genomes for the TrEMOLO paper
Dec 19, 2022
SABOT, Francois; MOHAMED, Mourdas, 2022, "Replication data for simulated reads for S1, S2 and S3 genomes for the TrEMOLO paper", https://doi.org/10.23708/N447VS, DataSuds, V1
This dataset contains the simulated reads used to validate TrEMOLO. The reads were created using DeeepSimulator v1.5 (https://github.com/liyu95/DeepSimulator/releases/tag/v1.5) using the options -B 2 -K n -l 20000.
Simulated genome sequences for replication control for TrEMOLO
Dec 16, 2022
SABOT, Francois; MOHAMED, Mourdas, 2022, "Simulated genome sequences for replication control for TrEMOLO", https://doi.org/10.23708/DSDTZ0, DataSuds, V1
This dataset contains the simulated genomes based on the G0-F100 initial sequence including the INSIDERs and OUTSIDERs simulated insertions.
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