biological-sequences

There are 0 repository under biological-sequences topic.

modernatx / seqlike
Unified biological sequence manipulation in Python
sequence biological-sequences biopython machine-learning
Language:Python 199
BioJulia / BioSequences.jl
Biological sequences for the julia language
bioinformatics biojulia biological-sequences biology
Language:Julia 148
kyu999 / biovec
A new approach for representing biological sequences
biological-sequences protvec vector
Language:Python 98
gcorso / NeuroSEED
Implementation of Neural Distance Embeddings for Biological Sequences (NeuroSEED) in PyTorch (NeurIPS 2021)
machine-learning bioinformatics biological-sequences pytorch hierarchical-clustering multiple-sequence-alignment neurips-2021
Language:Python 68
tidysq
BioGenies / tidysq
tidy processing of biological sequences in R
biological-sequences rstats bioinformatics tidyverse r tidy bioconductor fasta sequences tibble vctrs s3
Language:C++ 35
drostlab / metablastr
Seamless Integration of BLAST Sequence Searches in R
blast-searches blast blastn blasting sequence-diversity biological-sequences biomartr species nucleotide blast-hits blast-search protein
Language:R 31
dnbaker / bioseq
Tokenizers and Machine Learning Models for biological sequence data
transformers machine-learning tokenization biological-sequences
Language:C++ 21
biotorrents / gazelle
BioTorrents.de’s version of Gazelle
biology biological-data biological-sequences bittorrent bittorrent-tracker website api
Language:PHP 19
Jstacs / Jstacs
biological-sequences biological-sequence-statistics statistical-models statistical-learning machine-lerning classification discriminative-learning generative-model gradient-descent-algorithm mixture-model markov-model hidden-markov-model bayesian-network
Language:Java 16
debbiemarkslab / MuE
A package for making MuE observation models in Edward2.
biological-sequences probabilistic-programming proteins machine-learning tensorflow
Language:Python 13
BioJulia / SequenceVariation.jl
Biological sequence variation
biology biojulia biological-sequences variant-calling
Language:Julia 9
michbur / biogram
N-Gram Analysis of Biological Sequences
biological-sequences ngram-analysis r
Language:R 9
tshauck / gcgc
An ML-feature processing library for biological sequences.
bioinformatics machine-learning biological-sequences protein-design nlp genomics deep-learning
Language:Python 9
BjornFJohansson / seguid_calculator
A gui for calculating seguid checksums for biological sequences
biological-sequences python seguid-calculator checksum dna
Language:Python 6
xduan7 / bioseq-learning
deep learning experiments on biological sequences with PyTorch
bioinformatics unsupervised-learning pytorch protein-sequences gene-sequences biological-sequences deep-learning nucleotides genome
Language:Python 6
genomematt / pylazybam
A pure python lazy BAM parser
python dna-alignment bioinformatics biological-sequences biological-data-analysis
Language:Jupyter Notebook 5
haichengyi / bioseq2vec
BioSeq2vec: learning deep representation of biological sequences using LSTM Encoder-Decoder
biological-sequences representation-learning sequence-to-sequence lstm encoder-decoder rna-sequence protein-sequence ncrna-protein-interactions lncrna mirna circrnas
Language:Python 4
fcup-abi
msramalho / fcup-abi
Algorithms for Bionformatics - Python Module to handle biological sequences and run common algorithms and techniques
fcup bioinformatics mieic dna-sequences biological-sequences iupac rebase
Language:Python 4
mary060196 / CISC5001_Research_Project_Implementing_TRed_Efficiently
C++ Tandem Repeats Detector -- Spring 2020 Independent Study Class in the Computer Science Department of Brooklyn College
tandem-repeats edit-distance suffix-array brooklyn-college independent-study cisc-5001 computer-science-department multithreading landau-vishkin cplusplus-11 cpp11 bioinformatics biological-sequences dna rna proteins
Language:C++ 3
cobilab / cpm-fcm
An encoder for biological sequences using Copy Models and Finite-context models
data-compression biological-sequences
2
drostlab / seqstats
Biological Sequence Statistics in R
biological-sequence-statistics biological-sequences biological-data-analysis bioinformatics genomics
Language:R 2
tybens / SeqSpawner
An object-oriented Python library for simulating biological sequences
biological-sequences gc-frac ground-truth motifs grammars
Language:Python 2
antonioalmeida / bioseq
🍀 bioseq - a Python package to handle biological sequences and perform common Bioinformatics operations.
bioinformatics biological-sequences bioseq blast fcup msa phylogenetics upgma
Language:Jupyter Notebook 1
biocommons / mirrors-ncbi
Makefile (of all things) to space-efficiently mirror selected NCBI resources
bioinformatics ncbi transcripts sequences biological-sequences
Language:Makefile 1
Educorreia932 / FCUP-BINF
🧬 M:CC 2021/2022 - 1ˢᵗ year/ 2ⁿᵈ semester
fcup-abi university-course bioinformatics sequence-alignment biological-sequences
Language:Python 1
kubawajs / Motif-Searcher
Combinatorial algorithms in bioinformatics - Searching motifs in biological sequences
bioinformatics qual fasta searching-motifs biological-sequences c-plus-plus
Language:C++ 1
littleblackfish / apis-model
Discriminative modeling to support cis-regulation of DNA methylation
dna-methylation cis-regulation convolutional-neural-network biological-sequences
Language:Jupyter Notebook 1
MolEvolEpid / SEEPS
SEEPS: Sequence Evolution and Epidemiological Process Simulator
biological-sequences epidemiology evolution r-package simulation-framework hiv
Language:R 1
TwigCoder / DNA-Converter
A native Windows application that allows for the conversion of DNA to RNA and its respective proteins. Despite being created on and for Windows, the application has been styled after the GUI found on MacOS. The executable is now downloadable. The current release is v1.0.0.
biology executable pyqt pyqt5 pyqt5-desktop-application pyqt5-gui python python3 science biological-sequences science-tool research-and-development windows-application protein-sequences proteins
Language:Python 1
zyxue / bio-seq2seq-attention
Neural seq2seq model + attention with applications for biological sequences in mind
neural-network recurrent-neural-networks pytorch seq2seq biological-sequences
Language:Python 1
DevAhmed-py / uniprot_parser
Developed a Parser software to meticulously extract vital information such as GO, KEGG, and DOI numbers from each protein sequence within UniProt files. The software boasts adaptability for both command-line and GUI use.
biological-sequences parser python3 regular-expression tkinter-gui uniprot-data bioinformatics
Language:Python 0
ipb-halle / fasta-search-service
Reusable Docker container for sequence library search and alignment in relational databases with the FASTA program package
fasta rest biological-sequences docker
Language:Java 0
Itarix / py-arn
arn biological-sequences igem-competition
Language:Python 0
Kok-Herng / biological-sequence-file-format
Program to store and display biological sequence according to user's choice of file format
biological-sequences file-format object-oriented-programming oop bioinformatics
Language:C++ 0
drostlab / biodbretrievr
Retrieve and efficiently index entire biological sequence databases
data retrieval databasestoring biological-data biological-sequences
officialprofile / DynamicRepresentation
R library for graphical and numerical representation of the DNA/RNA sequences.
biological-sequences dna bioinformatics rna
Language:R