DAGchainer: Computing Chains of Syntenic Genes in Complete Genomes
...ng chains of ordered gene pairs are computed and reported. This algorithm can be used to mine large evolut...s of homologous genes found within a single genome, segmental genome duplications can be revealed. This s...2690 days ago
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ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
...n), a probabilistic method that estimates the ploidy of any given contig/scaffold based on its allele prop...process, they report findings regarding errors in sequencing. The method can be used for whole genome sho...2683 days ago
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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.2680 days ago
PBSuite: Software for Long-Read Sequencing Data from PacBio
...mat) to high-confidence draft assembles. PBJelly fills or reduces as many captured gaps as possible to pro...1-2105/15/180/abstractPBHoney is an implementation of two variant-identification approaches designed to ex...2680 days ago
splitbam: splits a BAM by chromosomes
...ference sequence dictionary (*.dict), it also creates some empty BAM files if no sam record was found for a chromosome. A pair of 'mock' SAM-Records can also be added to those empty...2679 days ago
YASRA: Reference based assembler
YASRA (Yet Another Short Read Assembler) performs comparative assembly of short reads using a reference genome, which can differ substantially from the genome being sequenced. Mappi...2678 days ago