• WebLogo

  • Referenced in 15 articles [sw17263]
  • precise description of sequence similarity than consensus sequences and can rapidly reveal significant features ... stacks of letters, one stack for each position in the sequence. The overall height...
  • iPARTS

  • Referenced in 4 articles [sw13839]
  • structures into 1D sequences of SA letters and continue to utilize classical sequence alignment methods...
  • SARSA

  • Referenced in 2 articles [sw13834]
  • structures into 1D sequences of SA letters and then utilize classical sequence alignment methods...
  • SHRiMP

  • Referenced in 8 articles [sw17146]
  • Next Generation Sequencing technologies, capable of sequencing hundreds of millions of short reads ... technique, separate thorough alignment methods for regular letter-space as well as AB SOLiD (color ... SHRiMP to map reads from a newly sequenced Ciona savignyi individual to the reference genome...
  • SWORD

  • Referenced in 1 article [sw19792]
  • motif in the 15-letter UIPAC alphabet in RNA sequences considering their secondary structure...
  • JAN

  • Referenced in 5 articles [sw11642]
  • There Are More Than 2**(n/17) n-Lettered Ternary Words. JAN, A Maple package that ... part by his brilliant paper: ”Non-Repetitive Sequences on three symbols...
  • BS Seeker

  • Referenced in 3 articles [sw23481]
  • sequencing. BACKGROUND: Bisulfite sequencing using next generation sequencers yields genome-wide measurements of DNA methylation ... that converts the genome to a three-letter alphabet and uses Bowtie to align bisulfite ... reads to a reference genome. It uses sequence tags to reduce mapping ambiguity. Post-processing...
  • MedPost

  • Referenced in 3 articles [sw07991]
  • letters long. The Viterbi algorithm is used to find the most likely tag sequence...
  • countmotif

  • Referenced in 1 article [sw14363]
  • sequencing errors are corrected, but the resulting sequences nevertheless contain a marginal level of uncertainty ... less of degenerated positions (like the letter “N” corresponding to any nucleotide). A previous work ... degenerated letters might lead to erroneous counts when performing pattern matching on these sequences...
  • uShuffle

  • Referenced in 1 article [sw26135]
  • evaluate the statistical significance of a biological sequence. In many cases, biologists need sophisticated shuffling ... preserve not only the counts of distinct letters but also higher-order statistics such ... counts. Results: We present a sequence analysis tool (named uShuffle) for generating uniform random permutations...
  • FORTH

  • Referenced in 6 articles [sw02975]
  • name is sometimes spelled with all capital letters as FORTH, following the customary usage during ... operating system) and the ability to compile sequences of commands for later execution. Some Forth...
  • SOLGASMIX

  • Referenced in 1 article [sw03005]
  • formulated as a constraints optimization problem. The letter is then restated by means of Lagrange ... some iteration step and (ii) the sequence of iterates fails to converge. It is shown...
  • Grail

  • Referenced in 17 articles [sw00374]
  • Grail is a symbolic computation environment for finite...
  • MACSYMA

  • Referenced in 687 articles [sw01209]
  • Macsyma is a general purpose symbolic-numerical-graphical...
  • MANET

  • Referenced in 23 articles [sw03067]
  • MANET is for exploring data, whether raw data...
  • UCI-ml

  • Referenced in 2415 articles [sw04074]
  • UC Irvine Machine Learning Repository. We currently maintain...
  • ETPS

  • Referenced in 143 articles [sw06302]
  • TPS and ETPS are, respectively, the Theorem Proving...
  • BayesDA

  • Referenced in 726 articles [sw11008]
  • BayesDA: Functions and Datasets for the book ”Bayesian...
  • AWK

  • Referenced in 13 articles [sw23781]
  • AWK is a programming language designed for text...