neherlab / treetime_examplesLinks
A collection of documented examples using TreeTime
☆23Updated 6 years ago
Alternatives and similar repositories for treetime_examples
Users that are interested in treetime_examples are comparing it to the libraries listed below
Sorting:
- BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale☆56Updated 2 years ago
- Reference-guided multiple sequence alignment of viral genomes☆70Updated 3 months ago
- create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks☆54Updated last month
- Influenza genome analysis Nextflow workflow☆28Updated this week
- A package to annotate protein sequences☆59Updated 6 months ago
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Updated 4 years ago
- ☆27Updated 5 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated last year
- Add biological annotations to variants in a given VCF file.☆32Updated 4 years ago
- MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.☆50Updated last month
- Improved Inference of Ortholog Groups using Hidden Markov Models☆37Updated this week
- Python bindings for the TaxonKit library☆40Updated 2 months ago
- SHOOT.bio - the phylogenetic search engine☆25Updated 2 years ago
- A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies☆35Updated last year
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆53Updated 2 months ago
- ☆41Updated last year
- GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison☆58Updated last year
- Visualization of the pan-genome output by panX☆64Updated 3 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆39Updated 5 months ago
- PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…☆30Updated 3 years ago
- Bacterial Annotation by Learned Representation of Genes☆58Updated 4 years ago
- Python HyPhy: Facilitating HyPhy execution and parsing☆21Updated 3 years ago
- Implementation of Krona to QIIME2☆16Updated last year
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- Strain Resolution ON Graphs☆47Updated 2 years ago
- Quality assessment of de novo transcriptome assemblies from RNA-Seq data☆24Updated 3 months ago
- SAMStat displays various properties of next-generation sequencing reads stored in SAM/BAM format.☆24Updated 2 years ago
- Metaphor: a general-purpose workflow for assembly and binning of metagenomes☆39Updated 10 months ago
- Main development repository for SpreadGL☆19Updated 11 months ago
- Interactive phylogenetic tree viewer/editor☆48Updated 2 years ago