bernardo-de-almeida
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README.md
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- genomics
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- segmentation
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#
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SegmentNT is a segmentation model leveraging the [Nucleotide Transformer](https://huggingface.co/InstaDeepAI/nucleotide-transformer-v2-500m-multi-species) (NT) DNA foundation model to predict the location of several types of genomics
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elements in a sequence at a single nucleotide resolution. It was trained on 14 different classes of human genomics elements in input sequences up to 30kb. These
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## Training data
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The **
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During training, sequences are randomly sampled in the genome with associated annotations. However, we keep the sequences in the validation and test set fixed by
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using a sliding window of length 30,000 over the chromosomes 20 and 21. The validation set was used to monitor training and for early stopping.
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- genomics
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- segmentation
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---
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# SegmentNT
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SegmentNT is a segmentation model leveraging the [Nucleotide Transformer](https://huggingface.co/InstaDeepAI/nucleotide-transformer-v2-500m-multi-species) (NT) DNA foundation model to predict the location of several types of genomics
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elements in a sequence at a single nucleotide resolution. It was trained on 14 different classes of human genomics elements in input sequences up to 30kb. These
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## Training data
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The **SegmentNT** model was trained on all human chromosomes except for chromosomes 20 and 21, kept as test set, and chromosome 22, used as a validation set.
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During training, sequences are randomly sampled in the genome with associated annotations. However, we keep the sequences in the validation and test set fixed by
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using a sliding window of length 30,000 over the chromosomes 20 and 21. The validation set was used to monitor training and for early stopping.
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