Alternatives and similar repositories for transflow

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

• apredeus / 10k_genomes
  Various scripts for efficient processing of 10k Salmonella genomes
  ☆16Updated 4 years ago
• GunzIvan28 / rMAP
  Bacterial analysis toolbox for full ESKAPE pathogen characterization and profiling the resistome, mobilome, virulome & phylogenomics usin…
  ☆26Updated 11 months ago
• idolawoye / BAGEP
  A pipeline for Bacterial Whole genome sequence data analysis
  ☆15Updated 3 years ago
• oschwengers / tadrep
  Targeted Detection and Reconstruction of Plasmids
  ☆22Updated last year
• USDA-VS / vSNP
  vSNP -- validate SNPs
  ☆22Updated last year
• nf-core / hgtseq
  A pipeline to investigate horizontal gene transfer from NGS data
  ☆26Updated last month
• rnajena / poseidon
  PoSeiDon: positive selection detection and recombination analysis pipeline
  ☆39Updated 3 months ago
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆36Updated 5 months ago
• Xiangyang1984 / Gcluster
  A simple-to-use tool for visualizing and comparing genome contexts for numerous genomes
  ☆18Updated last month
• theiagen / public_health_bacterial_genomics
  ☆26Updated 2 years ago
• raymondkiu / bioinformatics-tools
  Small and simple scripts useful for various bioinformatics purposes e.g. extract sequences from fasta files, rename fasta files (prefix a…
  ☆22Updated 2 months ago
• mbhall88 / pistis
  Quality control plotting for long reads
  ☆10Updated last year
• moshi4 / plot_genome_align_fig
  Plot genome alignment figure using progressiveMauve & genoPlotR
  ☆22Updated 3 years ago
• farhat-lab / fast-lineage-caller
  ☆14Updated 4 years ago
• HPCBio / TADA
  TADA - Targeted Amplicon Diversity Analysis - a DADA2-focused Nextflow workflow for any targeted amplicon region
  ☆22Updated last month
• karubiotools / getSequenceInfo
  Perl and Python scripts allowing to get sequence information from GenBank, RefSeq or ENA sequence repositories
  ☆14Updated 9 months ago
• nanoporetech / pipeline-umi-amplicon
  Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers
  ☆35Updated last year
• zheminzhou / pHierCC
  Hierarchical clustering of cgMLST
  ☆12Updated 2 years ago
• moshi4 / MGCplotter
  Microbial Genome Circular plotting tool for comparative genomics using Circos
  ☆39Updated 2 years ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆22Updated last year
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆50Updated 3 years ago
• elimoss / metagenomics_workflows
  Workflows for metagenomic sequence data processing and analysis.
  ☆16Updated 6 years ago
• pedronachtigall / CodAn
  CDS prediction in transcripts
  ☆24Updated 10 months ago
• thackl / seq-scripts
  scripts for sequence and feature conversion, annotation, analysis ...
  ☆28Updated 9 months ago
• cmdoret / tinycov
  Command line tool to plot genomic coverage from a BAM file
  ☆14Updated 2 years ago
• francesccoll / powerbacgwas
  PowerBacGWAS: Power calculations for Bacterial GWAS
  ☆13Updated 3 years ago
• zheminzhou / PEPPAN
  Phylogeny Enhanded Prediction of PAN-genome
  ☆43Updated 5 years ago
• muzafferarikan / gNOMO2
  gNOMO2 allows integrated multi-omics analyses of microbiomes
  ☆15Updated last year
• alexcritschristoph / soil_popgen
  Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes
  ☆16Updated 5 years ago
• jameslz / ncbi-kit
  Download NCBI assembly genomes with ftp. rsync, ascp
  ☆12Updated 3 years ago