mccortexDe novo genome assembly and multisample variant calling
Stars: ✭ 105 (+144.19%)
CAMSACAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
Stars: ✭ 18 (-58.14%)
Bowtie2A fast and sensitive gapped read aligner
Stars: ✭ 365 (+748.84%)
PHANOTATEPHANOTATE: a tool to annotate phage genomes.
Stars: ✭ 38 (-11.63%)
netSmoothnetSmooth: A Network smoothing based method for Single Cell RNA-seq imputation
Stars: ✭ 23 (-46.51%)
Vcflib C++ library and cmdline tools for parsing and manipulating VCF files
Stars: ✭ 414 (+862.79%)
EarlGreyEarl Grey: A fully automated TE curation and annotation pipeline
Stars: ✭ 25 (-41.86%)
GalaxyData intensive science for everyone.
Stars: ✭ 812 (+1788.37%)
OntologiesHome of the Genomic Feature and Variation Ontology (GFVO)
Stars: ✭ 16 (-62.79%)
Gwa tutorialA comprehensive tutorial about GWAS and PRS
Stars: ✭ 303 (+604.65%)
Bio.jl[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia
Stars: ✭ 257 (+497.67%)
GenomicDataCommonsProvide R access to the NCI Genomic Data Commons portal.
Stars: ✭ 64 (+48.84%)
Biojava📖🔬☕️ BioJava is an open-source project dedicated to providing a Java library for processing biological data.
Stars: ✭ 434 (+909.3%)
viralrecallDetection of NCLDV signatures in 'omic data
Stars: ✭ 15 (-65.12%)
fermikitDe novo assembly based variant calling pipeline for Illumina short reads
Stars: ✭ 98 (+127.91%)
JcviPython library to facilitate genome assembly, annotation, and comparative genomics
Stars: ✭ 404 (+839.53%)
coolpuppyA versatile tool to perform pile-up analysis on Hi-C data in .cool format.
Stars: ✭ 42 (-2.33%)
Minimap2A versatile pairwise aligner for genomic and spliced nucleotide sequences
Stars: ✭ 912 (+2020.93%)
switchdeInference of switch-like differential expression along single-cell trajectories
Stars: ✭ 19 (-55.81%)
JvarkitJava utilities for Bioinformatics
Stars: ✭ 313 (+627.91%)
cloud-genomicsIntroduction to Cloud Computing for Genomics
Stars: ✭ 13 (-69.77%)
HailScalable genomic data analysis.
Stars: ✭ 706 (+1541.86%)
reg-genRegulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
Stars: ✭ 64 (+48.84%)
SeqA high-performance, Pythonic language for bioinformatics
Stars: ✭ 263 (+511.63%)
Vcfannoannotate a VCF with other VCFs/BEDs/tabixed files
Stars: ✭ 259 (+502.33%)
DeeptoolsTools to process and analyze deep sequencing data.
Stars: ✭ 448 (+941.86%)
Eggnog MapperFast genome-wide functional annotation through orthology assignment
Stars: ✭ 256 (+495.35%)
Tiledb VcfEfficient variant-call data storage and retrieval library using the TileDB storage library.
Stars: ✭ 26 (-39.53%)
GoatoolsPython library to handle Gene Ontology (GO) terms
Stars: ✭ 415 (+865.12%)
gff3toemblConverts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
Stars: ✭ 27 (-37.21%)
BwaBurrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
Stars: ✭ 970 (+2155.81%)
GenomeAnalysisModuleWelcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.
Stars: ✭ 19 (-55.81%)
Bwa Mem2The next version of bwa-mem
Stars: ✭ 408 (+848.84%)
bacnetBACNET is a Java based platform to develop website for multi-omics analysis
Stars: ✭ 12 (-72.09%)
BgdataA Suite of Packages for Analysis of Big Genomic Data
Stars: ✭ 19 (-55.81%)
dna-traitsA fast 23andMe genome text file parser, now superseded by arv
Stars: ✭ 64 (+48.84%)
JbrowseA modern genome browser built with JavaScript and HTML5.
Stars: ✭ 393 (+813.95%)
tiptoftPredict plasmids from uncorrected long read data
Stars: ✭ 27 (-37.21%)
RadiatorRADseq Data Exploration, Manipulation and Visualization using R
Stars: ✭ 40 (-6.98%)
mcscanCommand-line program to wrap dagchainer and combine pairwise results into multi-alignments in column format
Stars: ✭ 18 (-58.14%)
MegahitUltra-fast and memory-efficient (meta-)genome assembler
Stars: ✭ 343 (+697.67%)
MAGMA CelltypingFind causal cell-types underlying complex trait genetics
Stars: ✭ 41 (-4.65%)
Vgtools for working with genome variation graphs
Stars: ✭ 710 (+1551.16%)
PyfaidxEfficient pythonic random access to fasta subsequences
Stars: ✭ 307 (+613.95%)
awesome-geneticsA curated list of awesome bioinformatics software.
Stars: ✭ 60 (+39.53%)
chromapFast alignment and preprocessing of chromatin profiles
Stars: ✭ 93 (+116.28%)
ArvadosAn open source platform for managing and analyzing biomedical big data
Stars: ✭ 274 (+537.21%)
plasmidtronAssembling the cause of phenotypes and genotypes from NGS data
Stars: ✭ 27 (-37.21%)
NucleusPython and C++ code for reading and writing genomics data.
Stars: ✭ 657 (+1427.91%)
PygenoPersonalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
Stars: ✭ 261 (+506.98%)
GatkOfficial code repository for GATK versions 4 and up
Stars: ✭ 1,002 (+2230.23%)
Sixess🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files
Stars: ✭ 14 (-67.44%)
PostguiA React web application to query and share any PostgreSQL database.
Stars: ✭ 260 (+504.65%)