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soybeangdb

A comprehensive genomic database for Soybean

spark

Publication quality NGS track plotting

ssr2marker

An integrated pipeline for identification of SSR markers

ssrgenotyper

find SSRs in a population

ssrgt

SSRGT is a software used to genotype and SSR calling across a hybrid population with genome resequencing data.

ssrmmd

SSRMMD: A Rapid and Accurate Algorithm for Mining SSR Feature Loci and Candidate Polymorphic SSRs Based on Assembled Sequences.

ssrseq

A typing tool based on NGS SSR abundance table

ssrseq_count

An str count tool based on NGS SSR sequence

stages

structuralvariantanalysis

Scripts for a comprehensive structural variant analysis pipeline

svsfromgenomes

swamp

Sliding Window Alignment Masker for PAML

synnet-pipeline

Workflow for Building Microsynteny Networks

synteny_genoplotr

Micro-syteny analysis using 50kbp sub-genomic regions

syntenyplot

synvisio

SynVisio is an interactive multiscale visualization tool that lets you explore the results of McScanX a popular synteny and collinearity detection toolkit.

syri

Synteny and Rearrangement Identifier

table2itol

Generating iToL annotations from Spreadsheet or CSV files

taxaassign

Pipeline to annotate sequences at different taxonomic levels using NCBI's taxonomy

teloclip

Filter SAM file for soft-clipped alignments containing unassembled telomeric repeats.

tesorter

TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes

testb

this is a test

tn-seq

Analysis pipeline for Tn-seq protocol

toa

TOA (Taxonomy-oriented Annotation) establishes workflows geared towards plant species that automate the extraction of information from genomic databases and the annotation of sequences.

tools

tormes

Making whole genome bacterial sequencing data analysis easy

treemer

A simple tool to generate hierarchical clustering trees from nucleotide sequences. Supports a number of distance metrics and clustering algorithms. Includes a large testset of SARSCOV2 genomes.

tsebra

TSEBRA: Transcript Selector for BRAKER

tsrfinder

A tool for tRNA-derived small RNA annotation

tutorials

Tutorials on phylogenetic and phylogenomic inference