FSA: Fast Statistical Alignment
FSA is a probabilistic multiple sequence alignment algorithm which uses a "distance-ba...such as aligning thousands of sequences or megabase-long sequences. FSA introduces sev...ittle loss of accuracy. FSA can quickly align very long...2672 days ago
2662 days ago
ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
ConPADE (Contig Ploidy and Allele Dosage Estimation), a probabilistic method that estimates the ploidy of any give...real datasets are discussed and provide evidence that ConPADE performs well as long...2654 days ago
FinisherSC: a repeat-aware and scalable tool for upgrading de novo assembly using long reads
FinisherSC, a repeat-aware and scalable tool for upgrading de novo assembly using long reads. Experiments with real data suggest that FinisherSC can provide longer and higher quality contigs than existing tools while maintaining high concordance.2651 days ago
PBSuite: Software for Long-Read Sequencing Data from PacBio
...0047768PBJelly is a highly automated pipeline that aligns long sequencing reads (such as PacBio RS reads or long 454 reads in fasta format) to...on approaches designed to exploit the high mappability of long reads (i.e., greater than 10,000 bp...2651 days ago
YASRA: Reference based assembler
YASRA (Yet Another Short Read Assembler) p...erforms comparative assembly of short reads using a reference genome, whi...m the genome being sequenced. Mapping reads to reference genomes makes us...quality for 454 and Illumina sequence reads. YASRA uses LASTZ (http://bx...2649 days ago
2644 days ago
CONCOCT: Clustering cONtigs with COverage and ComposiTion
A program for unsupervised binning of metagenomic contigs by using nucleotide composition, coverage data in multiple samples and linkage data from paired end reads. Warning! This software is t...2644 days ago
2643 days ago
Pacbio Long Reads Compatible Software and Tools
The following software packages are known to be compatible with PacBio® data, in addition to PacBio's own SMRT® Analysis suite. All packages are believed to be...2635 days ago