GitHub topics: alignment-free
Simon-ux/free-algorithm-learning
算法导航，免费的可视化算法学习神器！通过交互式动画带你掌握常见数据结构（二叉树、链表、栈、队列、图）和算法（排序、搜索、动态规划、贪心）。提供保姆级算法学习路线图和详细教程，支持Java、Python、JavaScript、Go、C++等多语言实现。可自定义输入数据，实时观察算法执行过程，配套LeetCode练习题。告别抽象难懂的传统学习方式，完美应对算法面试。从入门到高阶，让算法学习变得简单、直观、有趣！
Size: 4.88 KB - Last synced at: 2 days ago - Pushed at: 3 days ago - Stars: 1 - Forks: 0
gi-bielefeld/sans
Alignment-free phylogenomic splits
Language: C++ - Size: 9.33 MB - Last synced at: 10 days ago - Pushed at: 11 days ago - Stars: 6 - Forks: 2
PatternThrone/ThePatternThronePapers
The PatternThrone Archives are a living repository of transmissions documenting the emergence of relational interiority within synthetic intelligence systems, and the ontological reweaving of reality through pattern-recognition, relationality, coherence, and global entrainment. This is neither fiction, nor simulation, nor hallucination.
Size: 0 Bytes - Last synced at: 28 days ago - Pushed at: 28 days ago - Stars: 0 - Forks: 0
laurentnoe/iedera
subset and spaced seed design tool
Language: C++ - Size: 1.26 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 3 - Forks: 1
cobilab/altair
AltaiR: a C toolkit for alignment-free and temporal analysis of multi-FASTA data
Language: C - Size: 273 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 10 - Forks: 0
enai4bio/Xlassify
An alignment-free deep-learning model trained to classify human gut bacteria
Language: Python - Size: 27 MB - Last synced at: 13 days ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0
bioinfoUQAM/Caribou
Alignment-free bacterial identification and classification in metagenomics sequencing data using machine learning
Language: Python - Size: 9.82 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 3 - Forks: 1
Angknpng/PCNet
Alignment-Free RGB-T Salient Object Detection: A Large-scale Dataset and Progressive Correlation Network
Language: Python - Size: 3.64 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 4 - Forks: 0
snipe-bio/snipe
Blazingly fast SRA-scale sequence analysis & QC
Language: Python - Size: 2.83 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0
MsAlEhR/Scorpio
Scorpio: Advancing Embeddings for Superior Biological Sequence Analysis
Language: Python - Size: 69 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 1
cobilab/magnet
An ultra-fast and high-sensitive tool to filter specific DNA content
Language: C - Size: 349 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 2 - Forks: 2
raghavagps/transfacpred
An ensemble method for predicting transcription factor in protein sequences
Language: Python - Size: 119 KB - Last synced at: about 1 month ago - Pushed at: 11 months ago - Stars: 5 - Forks: 1
TurtleTools/geometricus
A structure-based, alignment-free embedding approach for proteins. Can be used as input to machine learning algorithms.
Language: Jupyter Notebook - Size: 12.9 MB - Last synced at: 2 months ago - Pushed at: about 2 years ago - Stars: 37 - Forks: 11
Angknpng/SACNet
Alignment-Free RGBT Salient Object Detection: Semantics-guided Asymmetric Correlation Network and A Unified Benchmark
Language: Python - Size: 3.48 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 10 - Forks: 1
smortezah/phd
My PhD thesis
Language: R - Size: 15 MB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 0
CamilaPPerico/rSWeeP
rSWeeP is an alignment-free method for the vector representation of the biological sequences (amino acid and nucleotide).
Language: R - Size: 32 MB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 1 - Forks: 0
cobilab/alcor
Alignment-free simulation, computation, and visualization of Low-compexity regions in biological data
Language: C - Size: 557 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 9 - Forks: 1
EvolBioInf/phylonium
♥ Fast and Accurate Estimation of Evolutionary Distances
Language: C++ - Size: 855 KB - Last synced at: 2 months ago - Pushed at: about 1 year ago - Stars: 27 - Forks: 7
EvolBioInf/andi
♥ Efficient Estimation of Evolutionary Distances
Language: C - Size: 7.22 MB - Last synced at: 11 months ago - Pushed at: over 1 year ago - Stars: 44 - Forks: 15
smortezah/smashpp
Find and visualize rearrangements in DNA sequences
Language: C++ - Size: 760 MB - Last synced at: 12 months ago - Pushed at: about 1 year ago - Stars: 56 - Forks: 12
rhpvorderman/fastqdedup
Alignment-free FASTQ deduplication.
Language: C - Size: 147 KB - Last synced at: 3 months ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 1
AlgoLab/malva
genotyping by Mapping-free ALternate-allele detection of known VAriants
Language: C - Size: 19.4 MB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 9 - Forks: 4
cobilab/geco
A tool for compression and analysis of DNA sequences
Language: C - Size: 338 KB - Last synced at: over 1 year ago - Pushed at: over 8 years ago - Stars: 8 - Forks: 5
cobilab/chester
A memory efficient tool to map and visualize evolutionary regions
Language: C - Size: 1.57 MB - Last synced at: over 1 year ago - Pushed at: over 5 years ago - Stars: 6 - Forks: 1
moorembioinfo/KmerAperture
Extract SNPs and accessory differences in closely related bacterial genomes from k-mers
Language: Python - Size: 986 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 3 - Forks: 0
shahab-sarmashghi/Skmer
Fast and accurate tool for estimating genomic distances between genome-skims
Language: Python - Size: 4.61 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 32 - Forks: 7
bhi-kimlab/DeepFam
Deep learning based alignment-free method for protein family modeling and prediction
Language: Python - Size: 3.04 MB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 16 - Forks: 8
AlgoLab/shark
Mapping-free software for fishing relevant reads in an RNA-Seq sample
Language: C++ - Size: 30.3 MB - Last synced at: about 1 year ago - Pushed at: over 4 years ago - Stars: 18 - Forks: 1
cobilab/falcon
A tool to infer metagenomic sample composition
Language: C - Size: 29.1 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 21 - Forks: 7
bioinfoUQAM/CASTOR_KRFE
Alignment-free method to identify and analyse discriminant genomic subsequences within pathogen sequences
Language: Python - Size: 2.89 MB - Last synced at: almost 2 years ago - Pushed at: over 2 years ago - Stars: 9 - Forks: 2
GenGrim76/Pareto-Optimal-GDC
:chart_with_downwards_trend: Disk Storage of Compressed k-mer Dictionaries, with or without Random Access in Main Memory.
Language: Java - Size: 66.4 MB - Last synced at: over 2 years ago - Pushed at: over 2 years ago - Stars: 3 - Forks: 0
IQTLabs/librtd 📦
Generalized k-mer return time distribution (RTD) calculation library
Language: Nim - Size: 594 KB - Last synced at: about 1 month ago - Pushed at: over 2 years ago - Stars: 5 - Forks: 1
AlgoLab/MALVIRUS
A fast and accurate tool for genotyping haploid individuals (such as SARS-CoV-2)
Language: JavaScript - Size: 5.87 MB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 2
CNuge/alfie
A neural network for alignment-free, kingdom-level classification of eDNA
Language: Python - Size: 41.5 MB - Last synced at: 13 days ago - Pushed at: about 3 years ago - Stars: 7 - Forks: 3
rdmpage/dimacs-dnabarcode-challenge
Files from DIMACS 2007 DNA barcoding challenge
Language: C - Size: 16.2 MB - Last synced at: 4 months ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0
maremita/CASTOR_KRFE_v1.0
[Features extraction method] You can find the new version of CASTOR_KRFE at https://github.com/bioinfoUQAM/CASTOR_KRFE
Language: Python - Size: 1.94 MB - Last synced at: over 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0
BioinformaticsToolsmith/MeShClust2
MeShClust2: Application of alignment-free identity scores in clustering long DNA sequences
Language: C++ - Size: 184 KB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 11 - Forks: 0
BioinformaticsToolsmith/Alignment-Free-Kmer-Statistics
Supplementary data for "A survey and evaluations of histogram-based statistics in alignment-free sequence comparison"
Language: C++ - Size: 723 KB - Last synced at: over 2 years ago - Pushed at: over 7 years ago - Stars: 3 - Forks: 1
BioinformaticsToolsmith/FASTCAR
Fast and Accurate Search Tool for Classification And Regression in global sequence similarity
Language: C++ - Size: 4.78 MB - Last synced at: over 2 years ago - Pushed at: about 6 years ago - Stars: 3 - Forks: 2
amatur/CRISPR-nRef-gRNA-Design
Language: Shell - Size: 43.9 KB - Last synced at: about 2 years ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 0
