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Comment on "Short-read assembly using Spades !"
...the initial assembly is not satisfactory, SPAdes allows for an iterative assembly approach where the output from the previous assembly is used as input for another round of assembly...424 days ago
Comment on "Short-read assembly using Spades !"
...official website (http://cab.spbu.ru/software/spades/). It is available for Linux, macOS, and Windows operating systems. Prepare the input data: The input data should be in FASTQ forma...430 days ago
Comment on "Tools for Sequence translation !"
...examples of the many tools available for sequence translation. The choice of tool depends on the specific requirements of the user, including the input format, the genetic code used...430 days ago
Comment on "URMAP, an ultra-fast read mapper"
...ed following -map. Use "-" (minus sign) to get input from a pipe. If the reads are...ompressed, the filename must end in .gz. Piped input must be decompressed (you can...used for mapping or for indexing. PipesTo get input from a pipe, use /dev/stdin a...1292 days ago
Comment on "Sibelia: A comparative genomics tool"
...at occur exactly once in each input sequence, such blocks are us...re N is the total size of all input genomes. You can also use swi...st part of the file describes input sequencess (see "Blocks coord...hared between the genomes. If input genomes doesn't have such sh...1294 days ago
Comment on "Mugsy: multiple whole genome alignment tool"
...s and output a file /data/output/mygenomes.maf. The --directory setting is also used for storing temporary files during the run.The prefix of each input filename will be used as the...1294 days ago
Comment on "Tools to detect synteny blocks regions among multiple genomes"
halSynteny is the latest input in computational synteny halSynteny: a fast, easy-to-use conserved synteny block construction method for multiple whole-genome alignments htt...1439 days ago
Comment on "List of gene ontology software and tools"
GeneSCF serves as command line tool for clustering list of genes based on functional annotation (Geneontology, KEGG, REACTOME and NCG). This tool requires gene list in the form of Entrez Gene IDs or Official gene symbols as a input. http://genescf.kandurilab.org/1501 days ago
- ..., --help Print this help page -r <value>, --ref <value> an input reference file (fasta/fastq)[...ference files, one per line -q <value>, --query <value> an input query file (fasta/fastq)[.gz]...
2131 days ago
Comment on "Running Trinity on RNA-seq !"
...are several analyses you will likely want to pursue to explore aspects of the biology of your organism based on your assembled transcripts and the input RNA-Seq data. Such studies mi...2132 days ago
