Results for "reference"
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Comment on "Benchmarking Perl Module !"
...these function from the Benchmark module to run the benchmark. The timethese function takes two arguments: the number of iterations to run and a reference to the benchmark subroutine....417 days ago
Comment on "Short-read assembly using Spades !"
...This can 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...417 days ago
Comment on "CovCal: Coverage / Read Count Calculator"
Sequencing coverage is defined as the average number of reads that covers each base of the reference genome. Estimating the sequencing coverage is very important when yo...585 days ago
- ...o One. Compute ANI between single query and single reference genome: $ ./fastANI -q [QUERY_GENOME] -r [REFERENCE_GENOME] -o [OUTPUT_FILE]...sp;Compute ANI between single query genome and multiple reference genomes: $ ./fastANI -q...
1104 days ago
Comment on "URMAP, an ultra-fast read mapper"
map command Maps unpaired reads to a reference genome. The reference genome is stored as a UFI file c...command. The original FASTA file for the reference is not needed. Reads must be...add gunzip to the pipe if needed). The reference genome index filename is give...1286 days ago
Comment on "Mugsy: multiple whole genome alignment tool"
...ms. View or parse MAF output The output of Mugsy is Multiple Alignment Format (MAF).One option for browsing is GMAJ, which provides a reference-based stand-alone viewer for...1288 days ago
Comment on "REAPR: a universal tool for genome assembly evaluation"
...are ok, we continue: The first thing we reapr needs, is a list of all “perfect” reads. This is reads that have a perfect map to the reference. Reapr is finicky though, and...1339 days ago
- ... Find regex in reference sequence and show matches as...nbsp; Set genome and reference sequence. &n...
1522 days ago
Comment on "Genome in a Bottle (GIAB) Consortium"
...and GRCh38 under each genome at ftp://ftp-trace.ncbi.nlm.nih.gov/ReferenceSamples/giab/release/ Draft b...ribution of commercial products: increasing the diversity of germline reference samples and developing paired...1562 days ago
Comment on "Patterns: a modeling tool dedicated to biological network modeling"
https://github.com/fbertran/Patterns1745 days ago
