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Import and store the HTS mapper compendium

Results

  • The Data column indicates if the mapper is specifically tailored for DNA, RNA, miRNA, or bisulfite sequences.
  • The Seq.Plat. column indicates if the mapper natively supports reads from a specific sequencing platform or not.
  • The version column indicates the version of the mapper considered.
  • Read length limits are showed in two columns: minimum read length (Min. RL) and maximum read length (Max. RL.).
  • The support for mismatches and short indels is also presented including, where possible, the maximum number of allowed mismatches and indels
    • By default the value is presented in bases, but in some cases the value is presented as a percentage of the read size or as score, meaning that mapper uses a scoring function.
  • The alignments reported column indicate the alignments reported when a read maps to multiple locations.
  • The alignment column indicates if the reads are aligned end-to-end (Globally) or not (Locally).
  • The Parallel column indicates if the mapper can be run in parallel and if yes, how, using a shared-memory (SM) or/and a distributed memory (DM) computer.
  • The QA (quality awareness) column indicates if the mapper uses read quality information during the mapping.
  • The support for paired-end/mate-pair reads is indicated in the PE column.
  • The Splicing column indicates, for the RNA mappers, if the detection of splice junctions is made de novo or/and through user provided libraries (Lib).
  • The Index column indicates if the reads or/and the reference are indexed.
  • The number of citations was obtained from Google Scholar on 14 December 2012.


Query:


TEST

  • Mapper = Error: no local variable "Mapper" was set.
  • Data = Error: no local variable "Data" was set.
  • Availability = Error: no local variable "Availability" was set.
  • Version = Error: no local variable "Version" was set.
  • O.S. = Error: no local variable "os" was set.
  • Number Citations = Error: no local variable "citations" was set.
  • Citations per year = Error: no local variable "cpy" was set.
  • Platform = Error: no local variable "platform" was set.
  • Input = Error: no local variable "Input" was set.
  • Output = Error: no local variable "Output" was set.
  • Min read length = Error: no local variable "minrl" was set.
  • Max read length = Error: no local variable "maxrl" was set.
  • Mismatches = Error: no local variable "Mismatches" was set.
  • Indels = Error: no local variable "Indels" was set.
  • Gaps = Error: no local variable "Gaps" was set.
  • Alignment reported = Error: no local variable "align" was set.
  • Alignment = Error: no local variable "Alignment" was set.
  • Parallel= Error: no local variable "Parallel" was set.
  • QA = Error: no local variable "QA" was set.
  • PE = Error: no local variable "PE" was set.
  • Splicing = Error: no local variable "Splicing" was set.
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