PalMuc/2Tethya_genomes

The genome of the contractile demosponge Tethya wilhelma

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CMU-SAFARI/RawHash

RawHash is the first mechanism that can accurately and efficiently map raw nanopore signals to large reference genomes (e.g., a human reference genome) in real-time without using powerful computational resources (e.g., GPUs). Described by Firtina et al. (published at https://academic.oup.com/bioinformatics/article/39/Supplement_1/i297/7210440)

Language: C - Size: 23 MB - Last synced: about 18 hours ago - Pushed: about 20 hours ago - Stars: 38 - Forks: 4

nat2bee/repetitive_elements_pipeline

Pipeline to identify repetitive elements on non-model species genomes.

Language: R - Size: 2.17 MB - Last synced: 2 days ago - Pushed: 2 days ago - Stars: 4 - Forks: 1

justin-tpb/Vampyrellida-genomics

Scripts and data regarding Vampyrellida genomics.

Language: Shell - Size: 35.2 KB - Last synced: 3 days ago - Pushed: 3 days ago - Stars: 0 - Forks: 0

WGLab/NanoRepeat

NanoRepeat: fast and accurate analysis of Short Tandem Repeats (STRs) from Oxford Nanopore sequencing data

Language: Python - Size: 1.01 MB - Last synced: 3 days ago - Pushed: 4 days ago - Stars: 15 - Forks: 1

gauravcodepro/pacbiohifi-read-assimilator

a pacbiohifi read check for the quick view of the read types.

Language: Shell - Size: 20.5 KB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 0 - Forks: 0

genenotebook/genenotebook

A collaborative notebook for genes and genomes

Language: JavaScript - Size: 180 MB - Last synced: 5 days ago - Pushed: 5 days ago - Stars: 11 - Forks: 11

gauravcodepro/sequence-annotation

A function to make the genome and the transcriptome annotations to reflect the gene regions and how they should be displayed. Provided a gff file and asked annotation and other columns it uses pygenomeviz to make all the annotation maps.

Language: Python - Size: 17.6 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/protein-annotator

python package to analyze the protein coding regions for the genome annotation. It uses the miniprot for the alignment and gives you all the protein predicted mRNA, coding regions and other exon positions.

Language: Python - Size: 62.5 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 1 - Forks: 0

gauravcodepro/ruby-genome-annotation

A genome annotation length calculator written in ruby. It invokes the shell subprocess with in ruby to parse the iterators at the faster rate. if you have dozens of genome sequenced, simply mention the column number and the iterator will hash the length. added support for the features as

Language: Ruby - Size: 14.6 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/phytozome-pacid-fetcher

this function takes ids file with the gene of interest and the phytozome gff files and will fetch the pacid for the genes of interest.

Language: Python - Size: 7.62 MB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/ontology-annotation-count

a function to calculate the genome annotation for the microbiome and also for the other genomes. It will take a genome annotation or a text file and will prepare the count and also for the gene ontology analysis

Language: Python - Size: 27.3 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/gawk-awk-paf-alignments

a combination of the gawk and the awk basic compiler to create a function that will estimate the aligned genome fractions from the paf alignment of the genome long reads to the genome. This includes multiple functions which also allow for the filtering of the quality alignments before estimating the genome length coverage.

Language: Awk - Size: 545 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/docker-yaml-bioinformatics

a suite of the docker yaml bioinformatics that i wrote for the working.Each of the docker yaml is specific

Size: 34.2 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

SouradiptoC/CodonU

A python project for analysis of codon usage for gene or genome analysis

Language: Python - Size: 56.8 MB - Last synced: 9 days ago - Pushed: 19 days ago - Stars: 16 - Forks: 1

TobyBaril/EarlGrey

Earl Grey: A fully automated TE curation and annotation pipeline

Language: Python - Size: 5.13 MB - Last synced: 9 days ago - Pushed: 9 days ago - Stars: 113 - Forks: 17

NBChub/bgcflow

Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)

Language: Python - Size: 57.9 MB - Last synced: 5 days ago - Pushed: 8 days ago - Stars: 24 - Forks: 6

biocommons/bioutils

provides common tools and lookup tables used primarily by the hgvs and uta packages

Language: Python - Size: 1.56 MB - Last synced: about 13 hours ago - Pushed: 3 months ago - Stars: 18 - Forks: 18

mbhall88/rasusa

Randomly subsample sequencing reads

Language: Rust - Size: 13.3 MB - Last synced: 12 days ago - Pushed: 13 days ago - Stars: 186 - Forks: 16

AminMahpour/Wigman

Generate heatmap plots from genomic BigWig data

Language: Python - Size: 678 KB - Last synced: 13 days ago - Pushed: 13 days ago - Stars: 2 - Forks: 0

gauravcodepro/awk-pacbiohifi

awk simulators for the pacbiohifi assembly reading from the graphs. easy to use awk for the coverage and the length files. udpating later on with the complete awk functionalities for the compilation into the direct kernels.

Language: Awk - Size: 605 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/lastz-alignment-awk

genome sorting and plotting the length alignment from the lastz alignment for the node calculations right before you import them for the calculations.

Language: Awk - Size: 34.2 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/genome-size-estimation

a genome reference estimation based on the peak size calibration and the given the values of the peak size calibration will estimate the genome and the sub genome fraction.

Language: Python - Size: 6.84 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 1 - Forks: 0

gauravcodepro/illumina-genome-size

estimation of the genome size for the illumina reads, only for the pre-screening purposes and includes a R function also.

Language: Shell - Size: 33.2 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/awk-pacbiohifi1

a awk library package for the numerical reads analysis. parses the long reads and the pacbiohifi reads and the corresponding alignments .

Language: Awk - Size: 50.8 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/tairaccession

a python package for working with the tair, phytozome and conversions and also the annotation and coordinates checker.

Language: Python - Size: 36.3 MB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 1 - Forks: 0

gauravcodepro/mRNAplotter

plotting tools for the mRNA from the proteome to the genome anntoation. Produces a tab delimited files with the start and the stop of the mRNAs

Language: Python - Size: 10.7 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/codingplotter

a coding plotter for the protein annotations coming from the annotation of the genome using the protein hints and to extract and plot the specific length estimates.

Language: Python - Size: 24.4 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 1 - Forks: 0

gauravcodepro/intergenic-extractor

extracting all the intergenic regions from the genome annotation using the protein alignments.

Language: Python - Size: 52.7 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/visualfreq

alignment visualization and phylogeny plotting for genome aliged regions.

Language: R - Size: 20.5 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/genomehifi-contiguity

a conda yaml for the genomehifi-contiguity that will allow you to create the environment for all the analysis.

Size: 5.86 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/arabidopsis-api-tair

this repository contains a function which will make your access to tair datasets easier for the arabidopsis research. Run this function and it will run and download the arabidopsis datasets and make the required analysis. It will make all the dictionary with nested lists and tuples which will provide a easy access to the tair dataframe

Language: Python - Size: 10.4 MB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/tair-gff-ids

A set of functions which will provide easy access and cleaned gff from tair and uses a dataframe and datascience approach to get the systematic tair ids and their coordinates from the tair 10 gff version. It can be applied to any version of the tair for getting the systematic retrival of the tair ids.

Language: Python - Size: 4.69 MB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/miniprot-compleasm

a list of the awk expression that can be used for the preparation of the single and the duplicated genes across the reference genome mapping using the reference protein datasets

Language: Awk - Size: 26.4 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

gauravcodepro/miniprot-ruby-gem

a ruby gem for the parsing and extraction of the miniprot alignments to extract locus specific, ids specific, and score and iters

Language: Ruby - Size: 28.3 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

crisprVerse/Tutorials

Tutorials for the crisprVerse

Language: TeX - Size: 5.1 MB - Last synced: 7 days ago - Pushed: 11 months ago - Stars: 8 - Forks: 0

omatheuspimenta/GRAMEP

GRAMEP - Genome vaRiation Analysis from the Maximum Entropy Principle

Language: Python - Size: 1.98 MB - Last synced: 14 days ago - Pushed: 16 days ago - Stars: 0 - Forks: 0

marbl/Winnowmap

Long read / genome alignment software

Language: C - Size: 3.3 MB - Last synced: 16 days ago - Pushed: 16 days ago - Stars: 220 - Forks: 20

LaboratorioBioinformatica/MAGset

MAGset is a tool to analyze and compare MAGs of known species

Language: Java - Size: 13.9 MB - Last synced: 17 days ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

CMU-SAFARI/BLEND

BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy while reducing the memory space usage of two important applications: 1) finding overlapping reads and 2) read mapping. Described by Firtina et al. (published in NARGAB https://doi.org/10.1093/nargab/lqad004)

Language: C - Size: 13.6 MB - Last synced: 20 days ago - Pushed: about 1 year ago - Stars: 34 - Forks: 3

biocommons/hgvs

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

Language: Python - Size: 20.7 MB - Last synced: 21 days ago - Pushed: 21 days ago - Stars: 231 - Forks: 93

biocommons/.github

Organization-wide GitHub configuration

Size: 34.2 KB - Last synced: 24 days ago - Pushed: 24 days ago - Stars: 1 - Forks: 0

biocommons/biocommons.seqrepo

non-redundant, compressed, journalled, file-based storage for biological sequences

Language: Python - Size: 463 KB - Last synced: 25 days ago - Pushed: 25 days ago - Stars: 38 - Forks: 34

moshi4/COGclassifier

A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category

Language: Python - Size: 29.5 MB - Last synced: 7 days ago - Pushed: 6 months ago - Stars: 39 - Forks: 5

populationgenomics/production-pipelines

Genomics workflows for CPG using Hail Batch

Language: Python - Size: 15.9 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 1 - Forks: 0

pievos101/PopGenome

An Efficient Swiss Army Knife for Population Genomic Analyses in R

Language: R - Size: 900 KB - Last synced: 11 days ago - Pushed: about 1 year ago - Stars: 25 - Forks: 3

pmenzel/score-assemblies

Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s)

Language: Python - Size: 1.9 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 22 - Forks: 1

MiraldiLab/maxATAC

Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks

Language: Python - Size: 63.3 MB - Last synced: 12 days ago - Pushed: 4 months ago - Stars: 26 - Forks: 7

Sequedex/Sequedex-build

Files needed to build and run Sequedex V2.

Language: Java - Size: 2.19 MB - Last synced: about 2 months ago - Pushed: about 5 years ago - Stars: 1 - Forks: 0

fmalmeida/bacannot

Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.

Language: Nextflow - Size: 47.2 MB - Last synced: 7 days ago - Pushed: about 2 months ago - Stars: 94 - Forks: 9

AdrianaMacc/Covid-19-BigData-Project

SARS-COV-2 genome analysis using Big Data algorithms in order to find clusters of similar mutations that belongs to different clades which mutate together and generate the correspondent clade.

Language: Jupyter Notebook - Size: 513 KB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0

fabeschan/genomesequences

ECE358 Exercise - Finding Maximal Matches in Genome Sequences

Language: C++ - Size: 262 KB - Last synced: 2 months ago - Pushed: over 9 years ago - Stars: 0 - Forks: 0

selotape/G-PhoCS Fork of gphocs-dev/G-PhoCS

G-PhoCS is a software package for inferring ancestral population sizes, population divergence times, and migration rates from individual genome sequences.

Language: C++ - Size: 3 MB - Last synced: 2 months ago - Pushed: over 5 years ago - Stars: 0 - Forks: 0

rpianezza/GenomeDelta

Library-free horizontal transfer detection, with a focus on transposable element invasions

Language: Shell - Size: 54.5 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 4 - Forks: 0

biocommons/seqrepo-rest-service

OpenAPI-based REST interface to biological sequences and sequence metadata

Language: Python - Size: 313 KB - Last synced: 18 days ago - Pushed: about 2 months ago - Stars: 4 - Forks: 6

timweh/MEMSA

Multiple sequence alignment tool that builds on the concept of seed-and-extend algorithms

Language: C++ - Size: 154 KB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 0 - Forks: 0

niaid/Genome-Browsers

This repo contains materials for the Genome Browsers course, taught as part of ACE 2021.

Size: 5.03 MB - Last synced: 2 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 1

NBISweden/assembly-project-template

This is a template for all assembly projects. Please read the instructions below on how to use it.

Language: Shell - Size: 1.75 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 2 - Forks: 0

CMU-SAFARI/Genome-on-Diet

Genome-on-Diet is a fast and memory-frugal framework for exemplifying sparsified genomics for read mapping, containment search, and metagenomic profiling. It is much faster & more memory-efficient than minimap2 for Illumina, HiFi, and ONT reads. Described by Alser et al. (preliminary version: https://arxiv.org/abs/2211.08157).

Language: Roff - Size: 63 MB - Last synced: 20 days ago - Pushed: 8 months ago - Stars: 11 - Forks: 4

asntech/intervene

Intervene: a tool for intersection and visualization of multiple genomic region and gene sets

Language: Python - Size: 20.3 MB - Last synced: 28 days ago - Pushed: 7 months ago - Stars: 126 - Forks: 28

roybarkan2020/AbsGenome

Genome assembly steps (Haliotis asinina)

Size: 2.59 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 1 - Forks: 0

lynnlangit/TeamTeri

Genomics (computational bioinformatic data analysis) running on GCP, AWS or Azure

Language: Shell - Size: 134 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 51 - Forks: 16

boulderrinnlab/CLASS_2021

Statistical and computational analysis of the human genome

Language: R - Size: 6.85 MB - Last synced: 3 days ago - Pushed: over 2 years ago - Stars: 14 - Forks: 7

kalilamali/ucm_genomes_and_genome_analysis

R code in R Markdown used for ucm genomes and genome analysis course

Language: HTML - Size: 61.6 MB - Last synced: 18 days ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

brandonsaldan/codex

A minimal genetic data explorer that processes all genetic information locally.

Language: JavaScript - Size: 13.7 MB - Last synced: about 2 months ago - Pushed: 7 months ago - Stars: 24 - Forks: 1

Zhihan1996/DNABERT_2

The official implementation of DNABERT-2.

Language: Shell - Size: 711 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 148 - Forks: 31

biocommons/biocommons.github.io

biocommons website

Language: Python - Size: 3.21 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 3

AmpliconSuite/AmpliconReconstructorOM

Reconstructs complex variation using Bionano optical mapping data and breakpoint graph data

Language: Python - Size: 46.6 MB - Last synced: 5 days ago - Pushed: 6 months ago - Stars: 14 - Forks: 6

satoshikawato/gbdraw

A genome diagram generator for microbes

Language: Python - Size: 50.7 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

ilarsf/gwasTools

Basic and fast GWAS functions for QQ and Manhattan plots (incl. gene names)

Language: R - Size: 1.18 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 27 - Forks: 6

joerivandervelde/alphamissense-vkgl-threshold

Optimal AlphaMissense threshold based on VKGL variant classifications

Language: R - Size: 404 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

biocommons/actions

GitHub Actions used by biocommons repos

Size: 6.84 KB - Last synced: 3 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

jlescroart/tigrinus

Code (in progress) for analysis of historic and modern sequencing data of tiger cats.

Language: Python - Size: 16.6 KB - Last synced: 3 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

sablokgaurav/pacbio_hifiasm_polished

a streamline for the pacbiohifiasm and polishing and also making the contiguity maps both instance based and a snakemake code.

Size: 1.95 KB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

DarisCappelletti/Gff3-tools

C# web tool for reading GFF3 files, filtering, ordering, extracting information into Excel, GFF3 files, CDS files, and comparing GFF3 data with FASTA and CDS files.

Language: ASP.NET - Size: 1.95 MB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 2 - Forks: 0

biocommons/anyvar

[in development] Proof-of-Concept variation translation, validation, and registration service

Language: Python - Size: 222 KB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 11 - Forks: 5

cccnrc/plot-VCF

visual analysis of your VCF files

Language: R - Size: 75.9 MB - Last synced: 4 months ago - Pushed: over 1 year ago - Stars: 12 - Forks: 2

MorikoneM/GeneCNN

GeneCNN - Convolutional Neural Network-Based Gene Prediction

Language: Jupyter Notebook - Size: 10.7 KB - Last synced: 4 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

Genometric/MSPC

Using combined evidence from replicates to evaluate ChIP-seq peaks

Language: C# - Size: 22.9 MB - Last synced: about 1 month ago - Pushed: about 2 months ago - Stars: 18 - Forks: 10

CMU-SAFARI/Molecules2Variations

The first work to provide a comprehensive survey of a prominent set of algorithmic improvement and hardware acceleration efforts for the entire genome analysis pipeline used for the three most prominent sequencing data, short reads (Illumina), ultra-long reads (ONT), and accurate long reads (HiFi). Described in arXiv (2022) by Alser et al. https://arxiv.org/abs/2205.07957

Size: 4.31 MB - Last synced: 20 days ago - Pushed: almost 2 years ago - Stars: 8 - Forks: 0

jlescroart/Lescroart2023 📦

Archived code for analyses in "Extensive phylogenomic discordance and the complex evolutionary history of the Neotropical cat genus Leopardus" (Lescroart et al. 2023, MBE)

Language: Python - Size: 623 KB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 7 - Forks: 0

VishnuRaghuram94/GASP

Raw data and code for the Genomic Analysis of Singles and Pools (GASP) project - https://doi.org/10.1099/mgen.0.001111

Size: 32.3 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 0 - Forks: 0

wiedenhoeft/HaMMLET

Fast Bayesian Hidden Markov Model with Wavelet Compression

Language: C++ - Size: 2.52 MB - Last synced: 4 months ago - Pushed: over 4 years ago - Stars: 17 - Forks: 4

mcveanlab/mccortex

De novo genome assembly and multisample variant calling

Language: C - Size: 9.86 MB - Last synced: 7 months ago - Pushed: about 5 years ago - Stars: 107 - Forks: 24

waterml/blast2hgt

Determine horizontal transfers based on sequence similarity

Language: Perl - Size: 835 KB - Last synced: 7 months ago - Pushed: over 1 year ago - Stars: 3 - Forks: 1

RayDebashree/GWAStools

A curated list (with links) of useful tools for genome-wide association analysis.

Size: 4.88 KB - Last synced: 7 months ago - Pushed: about 5 years ago - Stars: 7 - Forks: 4

leaemiliepradier/PlasForest

A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes

Language: Python - Size: 89.6 MB - Last synced: 7 months ago - Pushed: about 1 year ago - Stars: 13 - Forks: 6

ebbgroup/Genomic-comparisons-in-Blattodea

Genome analysis scripts

Language: Python - Size: 36.1 KB - Last synced: 7 months ago - Pushed: over 6 years ago - Stars: 1 - Forks: 2

robinvanderlee/positive-selection

Scripts and procedures for detecting positively selected genes and codons in primates

Language: Perl - Size: 169 MB - Last synced: 7 months ago - Pushed: over 3 years ago - Stars: 19 - Forks: 16

yaseenkady/simvastatin-metabolization

Size: 11.2 MB - Last synced: 7 months ago - Pushed: almost 7 years ago - Stars: 0 - Forks: 0

RayDebashree/metaUSAT

metaUSAT is a data-adaptive statistical approach for testing genetic associations of multiple traits from single/multiple studies using univariate GWAS summary statistics.

Language: R - Size: 223 KB - Last synced: 7 months ago - Pushed: almost 3 years ago - Stars: 16 - Forks: 4

RRafiee/GenomeAnalysisToolkit

Genome Analysis Toolkit

Language: R - Size: 45.9 KB - Last synced: 7 months ago - Pushed: over 5 years ago - Stars: 1 - Forks: 0

agudeloromero/EVEREST 📦

Viral genome assemble and characterisation

Language: Python - Size: 79.1 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 9 - Forks: 0

RoninSanta/Artificial_Intelligence-Genetic_Algorithms_on_Objects

Testing effects of evolutionary genetic algorithm to create an object that can walk without user interference

Language: Jupyter Notebook - Size: 190 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 1 - Forks: 0

berybox/KEC

Unique sequence search by K-mer exclusion

Language: Go - Size: 5.53 MB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 8 - Forks: 0

kishwarshafin/helen

H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)

Language: Python - Size: 7.27 MB - Last synced: 5 days ago - Pushed: over 3 years ago - Stars: 68 - Forks: 9

songlab-cal/flinty

A Simple and Flexible Test of Sample Exchangeability with Applications to Statistical Genomics

Language: Python - Size: 19.1 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

ganlab/GALA

Long-reads Gap-free Chromosome-scale Assembler

Language: Python - Size: 4.87 MB - Last synced: 7 months ago - Pushed: about 1 year ago - Stars: 60 - Forks: 12

koadman/libMems

a genome alignment library built around seed-and-extend algorithms for maximal exact and unique matches

Language: C++ - Size: 22.7 MB - Last synced: 9 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

kasrakn/MRA

MRA, A Novel Multi-head Algorithm to Discover all Tandem Repeats in One Scan of DNA Sequences.

Language: C - Size: 9.75 MB - Last synced: 9 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0