Results for "Map"
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Comment on "URMAP, an ultra-fast read mapper"
map command Maps unpaired reads to a reference genome...ASTQ filename is specified following -map. Use "-" (minus sign) to get...umber of processor threads to use for mapping. Default is the number of...g /dev/stdout will not work because urmap attempts to create the file....1273 days ago
Comment on "REAPR: a universal tool for genome assembly evaluation"
...the assembly based on incongruently mapped reads. It is heavily based...on too low span coverage, or reads mapping too far or too close to e.... This is reads that have a perfect map to the reference. Reapr is fi...ormation on how to create a perfect mapping file, and create a perfec...1327 days ago
Comment on "Genome in a Bottle (GIAB) Consortium"
...chmark large indel and structural variant calls, as well as calls in difficult genomic contexts (e.g., homopolymers/tandem repeats and difficult-to-map regions like pseudogenes and...1549 days ago
Comment on "Tools to detect synteny blocks regions among multiple genomes"
...arameter D, which is really simple to handle, needs to be set) and (iii) it provides a rich set of graphic outputs (notably an interactive synteny map that allows zooming in breakp...1584 days ago
- ➜ mashmap-Linux64-v2.0 git:(master) ✗ ./mashmap -h-----------------Mashmap is an approximate long read o...----------Example usage:$ mashmap -r ref.fa -q seq.fq [OPTIONS]...t;, --segLength <value> mapping segment length [default :...tput file name [default : mashmap.out] -k <value>, --kme...
2112 days ago
Comment on "Run miniasm assembler on nanopore reads !"
...or analyzing PacBio data. Minimap only accepts two FASTQ files...gle file prior to running minimap. minimap2 -x ava-pb -t 23 \...fastq /home/data/20170911_minimap2_pacbio_oly.paf > /home/da...tq \ 20170918_oly_pacbio_minimap_mappings.paf \ 20170918_oly_...2157 days ago
Comment on "poRe: an R package for the visualization and analysis of nanopore sequencing data"
...e 2D sequence data as FASTQ from the MinION data. Nick’s SQK-MAP-006 data are in the old FAST5...ript in “old_format”: ./poRe_scripts/old_format/extract2D MAP006-1/MAP006-1_downloads/pass/...2164 days ago
- ...---------------------------------------------------------------- Map paired-end (mate-pair) reads...sert size (INT) is used instead of auto estimation. -s INT : Mapping seed length (default 32)...
2789 days ago
Comment on "Software packages for next gen sequence analysis"
...with Whole Genome Profiling™ Data MaGuS (Map-GUided Scaffolding) is a scaf...lity. It uses a draft genome assembly, a genome map, and high-throughput sequenci...lumina reads and a Whole-Genome Profiling (WGP) map. https://github.com/institut...2898 days ago
- ...BUSCO (we have issues with fish, seems not to be tailored to that group of organisms, developers tell us they are fixing it) linkage map? or other map (RAD-tag based). (software?)...
2921 days ago
