Rebaler: program for conducting reference-based assemblies using long reads.
...cting reference-based assemblies using long reads. It relies mainly on minimap2 for alignment and Racon for making consensus sequences. I made Rebaler for bacteria...2100 days ago
KAST: Perform Alignment-free k-tuple frequency comparisons from sequences
Perform Alignment-free k-tuple frequency comparisons from sequences. This can be in the form of two input files (e.g. a reference and a query) or a single file for pairwise comparisons to be made.2098 days ago
S-plot2: creates an interactive, two-dimensional heatmap of sequences
S-plot2 creates an interactive, two-dimensional heatmap capturing the similarities and dissimilarities in nucleotide usage between genomic sequences (partial or complete). In S-plot2,...2090 days ago
2090 days ago
S-plot2: Rapid Visual and Statistical Analysis of Genomic Sequences
S-plot2 creates an interactive, two-dimensional heatmap capturing the similarities and dissimilarities in nucleotide usage between genomic sequences (partial or complete). In S-plot2,...2086 days ago
GenomeThreader: Gene Prediction Software
...structure predictions. The gene structure predictions are calculated using a similarity-based approach where additional cDNA/EST and/or protein sequences are used to predict gene stru...2085 days ago
BASE: a practical de novo assembler for large genomes using long NGS reads
...lidation to remove the branches based on read coverage and paired-end information, resulting in high-quality consensus sequences of reads sharing the seeds. Such consensus sequences are then extended to contigs.2069 days ago
Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads
...he similarity is defined by comparing the 2nd reads of a RAD segment. This approach tries to collapse heterozygote while discriminate repetitive sequences. At last, Rainbow uses a gree...2069 days ago
KOBAS: a web server for gene/protein functional annotation and functional gene set enrichment
...nnotate module) and functional gene set enrichment(Enrichment module). For Annotate module, it accepts gene list as input, including IDs or sequences, and generates annotations fo...2069 days ago
RopeBWT2: Incremental construction of FM-index for DNA sequences
RopeBWT2 is an tool for constructing the FM-index for a collection of DNA sequences. It works by incrementally inserting one or multiple sequences into an existing pseudo-BWT position by position, starting from the e...2063 days ago