• RSEM

  • Referenced in 12 articles [sw17160]
  • data. RSEM outputs abundance estimates, 95% credibility intervals, and visualization files and can also simulate ... show that accurate gene-level abundance estimates are best obtained with large numbers of short ... single-end reads. On the other hand, estimates of the relative frequencies of isoforms within ... user-friendly software tool for quantifying transcript abundances from RNA-Seq data. As it does...
  • marked

  • Referenced in 4 articles [sw14404]
  • Mark-Recapture Analysis for Survival and Abundance Estimation. Functions for fitting various models to capture ... POPAN structured Jolly-Seber models for abundance estimation. Includes a CJS models that concurrently estimates...
  • HDDM

  • Referenced in 11 articles [sw16420]
  • model to data, current estimation methods require an abundance of response time measurements to recover...
  • mrds

  • Referenced in 2 articles [sw16309]
  • package mrds. Animal abundance estimation via conventional, multiple covariate and mark-recapture distance sampling (CDS/MCDS/MRDS ... plotting for fitted detection functions. Abundance estimation is via a Horvitz-Thompson-like estimator...
  • Salmon

  • Referenced in 7 articles [sw31865]
  • inference algorithm to estimate transcript-level abundances for your experiment...
  • Kmerlight

  • Referenced in 1 article [sw36897]
  • Kmerlight: fast and accurate k-mer abundance estimation. k-mers (nucleotide strings of length ... also shown. We use abundance histogram for de novo estimation of repetitiveness in the genome ... also show estimation of k-mer error rate in the sampling using abundance histogram ... algorithm can also be used for abundance estimation in a general streaming setting. The Kmerlight...
  • Rdistance

  • Referenced in 1 article [sw28685]
  • Distance-Sampling Analyses for Density and Abundance Estimation. Distance-sampling is a popular method ... estimating density and abundance of organisms in ecology. Rdistance contains routines that assist with analysis ... site-level (transect or point) abundance estimates are available. A large suite of classical, parametric...
  • FC-TLBO

  • Referenced in 1 article [sw22855]
  • fully constrained meta-heuristic algorithm for abundance estimation using linear mixing model. A study ... abundance estimation has vital importance in spectral unmixing of hyperspectral image. Recently, various methods have ... into a combinatorial optimisation problem by introducing abundance sum to one constraint and abundance...
  • Kraken

  • Referenced in 1 article [sw36898]
  • expensive, forcing researchers to use faster abundance estimation programs, which only classify small subsets ... times faster than the abundance estimation program MetaPhlAn. Kraken is available at http://ccb.jhu.edu/software/kraken/....
  • Popan

  • Referenced in 3 articles [sw17040]
  • capture rates. POPAN, in addition, permits estimation of abundance and recruitment rates...
  • caribou

  • Referenced in 1 article [sw27387]
  • package caribou: Estimation of caribou abundance based on large scale aggregations monitored by radio telemetry ... This is a package for estimating the population size of migratory caribou herds based ... Rivest et al. (1998) about caribou abundance estimation. It also includes a function based...
  • WiSP

  • Referenced in 1 article [sw33984]
  • tool to illustrate methods used to estimate the abundance of closed wildlife populations. It enables ... survey the populations and to estimate the abundance. It can be used to assess properties...
  • abSNP

  • Referenced in 1 article [sw33988]
  • calling in repetitive regions via abundance estimation. Variant calling, in particular, calling SNPs (single nucleotide ... data, namely the varying abundance of different genes, in order to identify which repetitive copy...
  • multimark

  • Referenced in 1 article [sw16691]
  • patterns of bilaterally asymmetrical species, to estimate abundance and related demographic parameters while accounting...
  • KmerStream

  • Referenced in 1 article [sw36880]
  • KmerStream: streaming algorithms for k-mer abundance estimation. Results: We present KmerStream, a streaming algorithm...
  • Distance

  • Referenced in 2 articles [sw16303]
  • constraints and binning are supported. Abundance and density estimates can also be calculated...
  • rSeqDiff

  • Referenced in 2 articles [sw27647]
  • that our approach provides accurate estimates of isoform abundances and biological meaningful rankings of differentially...
  • jointNmix

  • Referenced in 1 article [sw25548]
  • site-associated species. Includes functions to estimate latent abundances through empirical Bayes methods...
  • RNA-Skim

  • Referenced in 1 article [sw36899]
  • within a cluster are sufficient for estimating transcript abundances with accuracy comparable with any state...
  • dsm

  • Referenced in 1 article [sw16304]
  • used to calculate spatially-explicit estimates of animal abundance from distance sampling (also presence/absence ... provided for model checking, plotting and variance estimation...