PepTool™ and GeneTool™: Platform-Independent Tools for Biological Sequence Analysis
Bibliographic record
Abstract
PepTool™ and GeneTool™ are two new bioinformatics software packages currently being offered by BioTools Inc. (www. bio too ls . com). As the names might imply, PepTool is designed for protein sequence analysis and GeneTool is designed for DNA sequence analysis. The combined package is typically priced at $1500 for academic users and $1875 for commercial users. PepTool is actually based on two public domain programs originally developed at the University of Alberta- SEQSEE ( 1 ) and XALIGN ( 2 ). These two UNIX-specific programs were later adapted to other platforms, given a graphical user interface ( 3 ) and subsequently licensed to BioTools as a commercial package called PepTool. GeneTool was developed independently by BioTools, although it uses some key concepts and algorithms originally found in PepTool. PepTool (version 1.0) was released in December 1997 and GeneTool (version 1.0) was released in December 1998. These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.010 | 0.014 |
| Meta-epidemiology (narrow) | 0.005 | 0.005 |
| Meta-epidemiology (broad) | 0.005 | 0.004 |
| Bibliometrics | 0.009 | 0.008 |
| Science and technology studies | 0.002 | 0.002 |
| Scholarly communication | 0.005 | 0.005 |
| Open science | 0.008 | 0.006 |
| Research integrity | 0.002 | 0.010 |
| Insufficient payload (model declined to judge) | 0.051 | 0.095 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".