Results for "Genomes"
Comments
Comment on "Short-read assembly using Spades !"
...be done using tools such as QUAST or BUSCO. These tools assess the completeness and accuracy of the assembled genome by comparing it to reference genomes or sets of conserved genes....405 days ago
- ...dwgsim is a short read simulator that can generate synthetic reads from whole genome sequencing data. It is designed to simulate reads from large genomes and can handle complex genome...
405 days ago
Comment on "Tools to detect synteny blocks regions among multiple genomes"
...Identify orthologous genes: Identify the orthologous genes between the genomes using tools such as OrthoFind...speciation. Determine the synteny: Determine the synteny between the genomes by comparing the location and...413 days ago
Comment on "Calling variants in non-diploid systems"
...the number of samples is not known. This is the exact scenario we have here: in our sample we have multiple mitochondrial (or bacterial or viral) genomes, but we do not know exactly h...1033 days ago
- ...y. Compute ANI between single query genome and multiple reference genomes: $ ./fastANI -q [QUERY_G...EFERENCE_LIST should be a file containing directory paths to reference genomes, one per line. Many to Man...
1091 days ago
Comment on "Important Journals, Blogs and Forums for Bioinformaticians"
...4) Epigenetics (4.780 :: 5.081) Frontiers in Genetics G3-Genes Genomes Genetics (3.198 :: 3.508...ientific Data FEBS Journal (4.001 :: 4.068) Tree Genetics & Genomes (2.451 :: 2.563) 3: L...1094 days ago
Comment on "Sibelia: A comparative genomics tool"
...analysis of distantly-related genomes. However, usage of this set...t shown on these diagrams. Genomes from the "examples/Sibelia" d...f the same synteny block. Genomes permutations ---------------...ption assumes that all input genomes contain single chromosome....1274 days ago
Comment on "Mugsy: multiple whole genome alignment tool"
...p; mugsy --directory /data/output --prefix mygenomes genome1.fasta genome2.fasta g...nome3.fasta This example will align three genomes and output a file /data/outpu...e viewer for MAF files. java -jar gmaj.jar mygenomes.maf1275 days ago
Comment on "Genome in a Bottle (GIAB) Consortium"
...Benchmarking best practices:To establish best practices for using GIAB genomes for benchmarking, we have wor...are welcome. Publications by GIAB:Benchmark small variants for 7 GIAB genomesOlder benchmark small variants...1549 days ago
Comment on "Tools to detect synteny blocks regions among multiple genomes"
...and user-friendly tool to reconstruct synteny blocks between (complex) genomes harboring different levels of...a desk computer, on the order of 40 minutes to compare two vertebrate genomes); (ii) it is easy to use (a...1583 days ago
