lbcb-sci / GNNomeLinks
A framework for training graph neural networks to untangle assembly graphs obtained from OLC-based de novo genome assemblers.
☆46Updated 2 weeks ago
Alternatives and similar repositories for GNNome
Users that are interested in GNNome are comparing it to the libraries listed below
Sorting:
- Learning to untangle genome assembly with graph neural networks.☆72Updated 7 months ago
- ORFFinder in Python☆15Updated 10 months ago
- Universal and efficient core gene phylogeny with Foldseek and ProstT5☆67Updated last week
- GCN classifier for phage taxanomy classification☆31Updated 7 months ago
- Deep learning embedding for nucleotide sequences☆18Updated 3 months ago
- Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!☆26Updated last month
- Detecting Sequence Signals in Targeting Peptides Using Deep Learning☆12Updated 5 years ago
- Learning and Aligning Large Protein Families with support of protein language models.☆25Updated last week
- Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.☆31Updated last week
- Simple phylogenetic tree visualization python package for phylogenetic analysis☆49Updated 9 months ago
- A tool for scanning FASTA protein sequences against a library of Pfam HMMs☆14Updated 2 years ago
- A program for detection of tRNA genes☆61Updated 2 years ago
- showTree can visualize the phylogeny, protein sequences and protein domains of a gene family in one figure.☆30Updated 6 years ago
- GeneMark-ETP: gene finding in eukaryotic genomes supported by transcriptome sequencing and protein homology☆23Updated 2 months ago
- Fast and flexible ORF finder☆71Updated 3 years ago
- MeShClust: an intelligent tool for clustering DNA sequences☆38Updated 3 years ago
- Discovery of conserved gene clusters in multiple genomes☆81Updated last month
- RNA secondary structure/sequence profiles for homology search and alignment☆110Updated 7 months ago
- GRAph-based Finding of Individual Motif Occurrences☆31Updated 9 months ago
- Host prediction for phages☆25Updated 7 months ago
- MeShClust2: Application of alignment-free identity scores in clustering long DNA sequences☆14Updated 3 years ago
- Knowledge-based Identification of Pathway Enzymes (KIPEs) performs an automatic annotation of the flavonoid biosynthesis steps in a new t…☆16Updated last month
- Associated code for EvoWeaver publication☆15Updated last month
- Improved Inference of Ortholog Groups using Hidden Markov Models☆35Updated 3 months ago
- ☆41Updated 2 months ago
- Tiberius is a deep learning gene finder.☆65Updated this week
- Tokenizers and Machine Learning Models for biological sequence data☆25Updated 9 months ago
- Protein hint generation pipeline for gene finding in eukaryotic genomes☆57Updated last year
- ☆11Updated 3 months ago
- ☆129Updated 9 months ago