FredHutch / microbial-rnaseqLinks
Analysis of RNAseq data from (host-associated) microbial mixtures
☆12Updated 6 years ago
Alternatives and similar repositories for microbial-rnaseq
Users that are interested in microbial-rnaseq are comparing it to the libraries listed below
Sorting:
- R Interface to the NCBI SRA metadata☆23Updated 7 years ago
- R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.☆24Updated last year
- A command line tool to compute mapping statistics from a BAM file☆25Updated 3 years ago
- De novo VIral Genome Annotator☆23Updated last year
- Handy tools for Microbiome analysis in R☆18Updated 6 years ago
- Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes☆31Updated last year
- Transposon Insertion Finder - Detection of new TE insertions in NGS data☆20Updated 6 months ago
- Exhaustive capture of biological variation in RNA-seq data through k-mer decomposition.☆15Updated 7 years ago
- Talk to the NCBI EUtils☆22Updated 5 years ago
- A program for fast and accurate genome-guided transcripts reconstruction and quantification from RNA-seq (Supporting Pacbio single-end)☆24Updated 4 years ago
- A shiny package for microbiome functional enrichment analysis☆37Updated last month
- ☆18Updated 8 years ago
- Homebrew formulae for bioinformatics software only available for Linux☆27Updated 6 years ago
- Merge transcriptome assemblies☆31Updated 9 years ago
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 4 years ago
- full taxonomer cython repository☆22Updated 6 years ago
- fastq quality assessment and filtering tool☆18Updated 3 years ago
- R package for Enrichment Depletion Logos (EDLogos) and String Logos☆27Updated 6 years ago
- Utility program for extracting sequences from a fasta/fastq file☆35Updated 11 months ago
- a Shiny/R application to view and annotate copy number variations☆28Updated 2 years ago
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- Unfazed by genomic variant phasing☆27Updated last year
- Ultra-efficient taxonomic mapping of NGS data☆51Updated 4 years ago
- Bioinformatics pipeline for nanopore sequencing data☆11Updated 6 years ago
- Preprocessing paired-end reads produced with experiment-specific protocols☆32Updated 7 years ago
- Visualise interstrain recombination from environmental samples.☆26Updated 6 years ago
- CAMITAX: Taxon labels for microbial genomes☆30Updated last year
- easy_sbatch - Batch submitting Slurm jobs with script templates☆16Updated 3 years ago
- Scripts for creating a Kraken database from the Comprehensive Antibiotic Resistance Database☆10Updated 8 years ago
- SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.☆23Updated 2 months ago