ESTcalc
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Application data |
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| Biological application domain(s) | RNA-Seq |
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| Maintained? | Maybe |
| Programming language(s) | Perl |
Summary: Estimation of project costs for RNA-Seq study.
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With sequencing technologies rapidly advancing, researchers will wish to predict the cost and potential outcomes of diverse transcriptome sequencing projects under a wide range of initial assumptions. We have constructed ESTcalc, an online webtool, which allows users to explore the results of this study by specifying individualized costs and sequencing characteristics. Users can choose a single sequencing method (5’ Sanger sequencing, GS20, GSFLX, or Solexa), perfectly normalized or non-normalized libraries, and varied amounts of sequencing and read lengths to predict many of the same parameters used in this study. User-defined costs can include both fixed (eg., cost of obtaining libraries) and per unit sequencing costs, with default costs the same as used in our study. ESTcalc will interpolate from the closest treatments examined in our simulation study, and predict a wide range of project outcomes such as the project cost, predicted number of unigenes, unigene length, transcriptome coverage, and related statistics presented earlier in this study. Combinations of sequencing strategies, such as normalized plus nonnormalized libraries, or combinations of different technologies, can also be examined under the same range of combinations used in our study. Additional combinations are being added to ESTcalc as they are obtained in ongoing data analyses.
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