CANU genome assembly parameters !
...[-s ] \ -p \ -d \ genomeSize=[g|m|k] \ -maxT...correction process. canu -p test_asmbl \ -d asm_test3 \ genomeSize=2m \ -maxThreads=2 useG...1944 days ago
List of tools frequently used while genome assembly
List of tools frequently used while genome assembly: I have used the following assemblers Spades (v. 3.10.1) C....18) Nanopolish (v. 0.8.3) I have used the following tools to assess geno...1929 days ago
Software for genome assembly !
List of bioinformatics tools/Software Website References for genome assembly: 1 Falcon https://github.com/PacificBiosciences/pb-assembly 2 Canu assembler http://canu.readthedo...1343 days ago
10 NGS services companies around the globe !
The global NGS services market is expected to reach USD 13.1 bil...on systems. The company’s genome services are suitable for cus...eration sequencing services including genomes, targeted (re)-sequencing, h...n India. Popular mentions – MedGeno...1258 days ago
Bioinformatics tools for telomere to telomere assembly !
● Merfin – k-mer-based assembly and variant calling...; algorithm that leverages a pangenome reference built from haplotype-resolved genome assemblies in conjunction wit...riptome data (Richard Kuo @GenomeRIK)● pbaa (PacBio A...long transcriptomic reads to a geno...991 days ago
Protocol for De novo Genome Assembly using Illumina Reads
...ly method for small to medium-sized genomes. What is de novo genome assembly?The method of taking...the DNA originated relates to genome assembly. No previous knowled...on a sequencing computer in a genome sequencing experiment. Depend...ew/42542/trimmomatic-command Genome Assembly:The object of this p...1203 days ago
Ancient whole genome duplication (WGD) detection tools !
There are two methods for ancient WGD detection, one is collinearity analysis, and the other is based o.../miniconda3/envs/wgd/make -j 4 make insatall Take the sugarcane genome Saccharum spontaneum L as an example. The geno...1154 days ago
Frequently used bioinformatics tools for viral genome analysis !
IVA: accurate de novo assembly of RNA virus genomes. Hunt M, Gall A, Ong SH, Brener J, Ferns B, Goul...0-1 (2012). GAGE: GAGE: A critical evaluation of genome assemblies and assembly algorithms. Salzberg, S. L. et al. Geno...1046 days ago
Illumina based assembly pipeline steps !
Illumina Merge re-sequenced FastQ files (cat) Read QC (FastQC) Adapter trimming (fa...; optional) Alignment-level QC (picard, SAMtools) Genome-wide and amplicon coverage QC...al variant screenshots with annotation tracks (ASCIIGeno...876 days ago
Useful Bioinformatics Analysis Tools !
CoMeta Classificier of reads from metagenomic sequencing experime...CoMeta: Classification of Metagenomes Using k-mers, PLOS ONE,...Compressor of collections of genome sequences. •  ...obust relative compression of genomes with random access, Bio...Compressor of collections of geno...862 days ago