Referee: Genome assembly quality scores
Modern genome sequencing technologies provide a succint measure of quality at each position in every read, however all of this information is lost in the assembly proce...2062 days ago
BLAST options, setting and defaults
...st be matched between the database and the query sequence default = 11 default = 3 default = 3 default = 3 default = 3 default = 11 Max scores:Number of one-line descriptio...2027 days ago
gVolante: Completeness Assessment of Genome/Transcriptome Sequences
A brand-new web server, gVolante, which provides an online tool for (i) on-demand completeness assessment of sequence sets by means of the previously developed pipelines CEGMA and BUSCO and (ii) browsing pre-computed completeness scores for publicly available data in its database section1993 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
...ienting of contigs. Chimeric contig correction GFF lift-over Structural variant calling with and integrated version of Assemblytics Confidence scores associated with the grouping,...1898 days ago
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
...d orienting of contigs. Misassembly correction GFF lift-over Structural variant calling with and integrated version of Assemblytics Confidence scores associated with the grouping,...1706 days ago
ALE: Assembly Likelihood Estimator
Just import the assembly, bam and ALE scores. You can convert the .ale file to a set of .wig files with ale2wiggle.py and IGV can read those directly. Depending on your genome size you may want to convert the .wig files to the BigWig format.478 days ago
ULTRA (ULTRA Locates Tandemly Repetitive Areas) : Effective Labeling of Repetitive Genomic Sequence
...find very large repeats in highly repetitive sequence, regardless of the size of sequence or length of repeats. ULTRA offers meaningful annotation scores and can produce annotation P-...19 days ago