Alternatives and similar repositories for ECOGEMS

Users that are interested in ECOGEMS are comparing it to the libraries listed below

• YaoLab-Bioinfo / shinyChromosome
  an R/Shiny application for interactive creation of non-circular plots of whole genomes
  ☆45Updated 6 months ago
• YaoLab-Bioinfo / shinyCircos-V2.0
  an R/Shiny application for interactive creation of Circos plot
  ☆49Updated 2 years ago
• ISUgenomics / common_analyses
  Repository of common bioinformatics scripts
  ☆39Updated 4 years ago
• 4ureliek / TEanalysis
  Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
  ☆29Updated 6 years ago
• carringtonlab / TargetFinder
  Plant small RNA target prediction tool
  ☆26Updated 8 years ago
• drostlab / myTAI
  Evolutionary Transcriptomics with R
  ☆49Updated last week
• esctrionsit / snphub
  A Shiny-based server framework for retrieving, analyzing and visualizing the large genomic variations data in a lab.
  ☆19Updated last year
• mritchielab / long_read_tools
  A catalogue of available long read sequencing data analysis tools
  ☆80Updated last month
• nf-core / lncpipe
  UNDER DEVELOPMENT--- Analysis of long non-coding RNAs from RNA-seq datasets
  ☆34Updated 7 months ago
• hangelwen / miR-PREFeR
  microRNA PREdiction From small RNA-seq data
  ☆29Updated 7 years ago
• NBISweden / GUESSmyLT
  An efficient way to guess the library type of your RNA-Seq data.
  ☆33Updated 3 years ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• johanzi / gwas_gemma
  Perform GWAS with gemma in a simple pipeline
  ☆27Updated 6 months ago
• pangenome / pggb-workshop
  tutorial on pggb
  ☆36Updated 10 months ago
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆28Updated 6 years ago
• kentnf / iTAK
  iTAK
  ☆45Updated last year
• sguizard / DensityMap
  DensityMap is perl tool for the visualization of features density along chromosomes
  ☆19Updated 3 years ago
• Trinotate / Trinotate.github.io
  web documentation for Trinotate
  ☆48Updated 2 years ago
• Sunhh / NGS_data_processing
  Tool set for processing fasta/fastq/table formated data. Usually they are perl scripts.
  ☆56Updated last week
• ShawnWx2019 / MetMiner
  MetMiner: A user-friendly pipeline for large-scale plant metabolomics data analysis
  ☆17Updated last year
• BGI-shenzhen / BamDeal
  BamDeal: a comprehensive toolkit for bam manipulation
  ☆54Updated 2 years ago
• Menggg / BLINK
  BLINK: A Package for Next Level of Genome Wide Association Studies with Both Individuals and Markers in Millions
  ☆38Updated 7 months ago
• ListerLab / TEPID
  Transposable element polymorphism identification
  ☆34Updated 5 years ago
• stephenfloor / extract-transcript-regions
  For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…
  ☆36Updated 2 years ago
• ZhangRenL / geneHapR
  ☆15Updated last year
• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 3 years ago
• popgenome / lettuce2020
  Codes for the lettuce resequencing project in 2020
  ☆31Updated 4 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• tanghaibao / bio-pipeline
  My collection of light bioinformatics analysis pipelines for specific tasks
  ☆76Updated last year
• guokai8 / bioAnno
  Build Annotation package by using information from KEGG, NCBI, Ensembl
  ☆15Updated 2 years ago