Results for “input filtering”

Identifies differential m6A methylation between conditions from MeRIP-seq paired IP/input data using exomePeak2 with `bam_ip` + `bam_input` (control arm) and `bam_treated_ip` + `bam_treated_input` (treatment arm) for integrated GC-bias-aware differential calling (Liu 2022 *NAR Genom Bioinform* 4:lqac046), QNB beta-binomial test (Liu 2017 *BMC Bioinformatics* 18:387), MeTDiff HMM-based differential bundled with MeTPeak, RADAR (Zhang 2019 *Genome Biol* 20:294) with its `filterBins -> diffIP -> reportResult` workflow, and the defensible paired-symmetric case of edgeR / DESeq2 on featureCounts-on-peaks matrices when batch / lot covariates need explicit fixed-effect handling (exomePeak2's top-level API does NOT accept arbitrary covariates). Covers paired vs unpaired vs interaction designs, batch confounding (antibody lot, RNA prep, sequencing run) and the per-lot meta-analysis strategy when exomePeak2 is the primary caller, the stoichiometry-vs-expression-vs-IP-efficiency confound that all MeRIP differential methods inherit, normalisation choice (size factor on IP, on input, on per-sample IP/input ratio), the McIntyre 2020 reproducibility caveat, effect-size filtering as a guardrail against under-powered N=2 designs, and orthogonal-validation routes for absolute stoichiometry (GLORI / SAC-seq / m6Anet `mod_ratio`). Use when comparing m6A levels across two or more conditions, choosing between exomePeak2 / QNB / RADAR / MeTDiff for a given design, handling batch confounding when exomePeak2's API is too rigid, normalising against input properly, distinguishing real hyper- / hypo-methylation from expression-level shifts, applying effect-size thresholds, interpreting volcano plots of differential peaks, or planning a follow-up orthogonal stoichiometry validation.

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Identifies differential m6A methylation between conditions from MeRIP-seq paired IP/input data using exomePeak2 with `bam_ip` + `bam_input` (control arm) and `bam_treated_ip` + `bam_treated_input` (treatment arm) for integrated GC-bias-aware differential calling (Liu 2022 *NAR Genom Bioinform* 4:lqac046), QNB beta-binomial test (Liu 2017 *BMC Bioinformatics* 18:387), MeTDiff HMM-based differential bundled with MeTPeak, RADAR (Zhang 2019 *Genome Biol* 20:294) with its `filterBins -> diffIP -> reportResult` workflow, and the defensible paired-symmetric case of edgeR / DESeq2 on featureCounts-on-peaks matrices when batch / lot covariates need explicit fixed-effect handling (exomePeak2's top-level API does NOT accept arbitrary covariates). Covers paired vs unpaired vs interaction designs, batch confounding (antibody lot, RNA prep, sequencing run) and the per-lot meta-analysis strategy when exomePeak2 is the primary caller, the stoichiometry-vs-expression-vs-IP-efficiency confound that all MeRIP differential methods inherit, normalisation choice (size factor on IP, on input, on per-sample IP/input ratio), the McIntyre 2020 reproducibility caveat, effect-size filtering as a guardrail against under-powered N=2 designs, and orthogonal-validation routes for absolute stoichiometry (GLORI / SAC-seq / m6Anet `mod_ratio`). Use when comparing m6A levels across two or more conditions, choosing between exomePeak2 / QNB / RADAR / MeTDiff for a given design, handling batch confounding when exomePeak2's API is too rigid, normalising against input properly, distinguishing real hyper- / hypo-methylation from expression-level shifts, applying effect-size thresholds, interpreting volcano plots of differential peaks, or planning a follow-up orthogonal stoichiometry validation.

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Build safety checks for LLM prompts and responses using Meta's LlamaGuard moderation model. Classify potentially harmful content, block flagged messages, serve checks through an API, and integrate them with NeMo Guardrails.

• Checking prompts before sending them to an LLM
• Filtering responses before displaying them
• Building a moderation API

Write Python for n8n Code nodes to transform, filter, aggregate, and validate workflow data. Get guidance on reading input items, returning the required JSON structure, using standard library modules, and avoiding common errors within n8n's Python execution modes.

• Transforming and filtering data in n8n with Python
• Calculating totals and basic statistics
• Extracting and validating text with regular expressions

Add safety checks to LLM applications with NeMo Guardrails. This skill guides input and output validation, detection of attempts to bypass safety rules, personal information masking, and checks for unsupported or inaccurate answers.

• Detect attempts to bypass an AI app's safety rules
• Mask personal information before processing
• Add fact-checking to generated answers

Build safety checks for LLM prompts and responses using Meta's LlamaGuard. This skill covers content classification, batch moderation, serving a moderation API, and connecting checks to NeMo Guardrails.

• Screening user prompts before sending them to an LLM
• Checking generated responses before displaying them
• Building an API for content safety checks

Configure safety checks for LLM applications with NeMo Guardrails. Covers attempts to bypass safety rules, input and output validation, masking personal information, and checking factual claims through programmable rules and integrations.

• Detecting instructions that try to bypass safety rules
• Masking personal information before processing
• Adding factual checks to generated answers

Use Meta's Prompt Guard to detect malicious instructions in user prompts and external data. This skill guides input filtering, batch checks for retrieved documents, detection threshold adjustments, and splitting long text for inspection.

• Detecting attempts to override an LLM's instructions
• Checking API responses for embedded malicious instructions
• Batch screening documents retrieved for RAG

Identifies differential m6A methylation between conditions from MeRIP-seq paired IP/input data using exomePeak2 (GC-bias-aware differential via its bam_ip/bam_input control + bam_treated_ip/bam_treated_input treatment arms), QNB beta-binomial, MeTDiff HMM, and RADAR, plus the paired-symmetric edgeR/DESeq2-on-peak-counts route when batch/lot covariates need fixed-effect handling that exomePeak2's API does not accept. Covers paired vs unpaired vs interaction designs, batch confounding and per-lot meta-analysis, the stoichiometry-vs-expression-vs-IP-efficiency confound, and effect-size filtering against under-powered N=2 designs. Use when comparing m6A across two or more conditions, choosing between exomePeak2/QNB/RADAR/MeTDiff for a design, handling batch confounding when exomePeak2's API is too rigid, distinguishing real hyper/hypo-methylation from expression shifts, applying effect-size thresholds, or planning orthogonal stoichiometry validation (GLORI/SAC-seq/m6Anet mod_ratio).

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Filter degenerate, uninformative inputs before statistical tests: single-sequence alignments, empty files, constant features, zero-variance inputs, all-NaN columns. See nan-safe-correlation for NaN-aware correlation; statistical-analysis for test guidance.

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Expert guide for defending AI applications against prompt injection, jailbreak attacks, indirect injection via tool outputs, and data exfiltration through tool calls — input sanitization, output filtering, canary token detection, and layered defense architecture / Panduan ahli pertahanan aplikasi AI terhadap prompt injection, serangan jailbreak, injeksi tidak langsung via output tool, dan eksfiltrasi data melalui tool calls — sanitasi input, filtering output, deteksi canary token, dan arsitektur pertahanan berlapis.

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Identifies differential m6A methylation between conditions from MeRIP-seq paired IP/input data using exomePeak2 (GC-bias-aware differential via its bam_ip/bam_input control + bam_treated_ip/bam_treated_input treatment arms), QNB beta-binomial, MeTDiff HMM, and RADAR, plus the paired-symmetric edgeR/DESeq2-on-peak-counts route when batch/lot covariates need fixed-effect handling that exomePeak2's API does not accept. Covers paired vs unpaired vs interaction designs, batch confounding and per-lot meta-analysis, the stoichiometry-vs-expression-vs-IP-efficiency confound, and effect-size filtering against under-powered N=2 designs. Use when comparing m6A across two or more conditions, choosing between exomePeak2/QNB/RADAR/MeTDiff for a design, handling batch confounding when exomePeak2's API is too rigid, distinguishing real hyper/hypo-methylation from expression shifts, applying effect-size thresholds, or planning orthogonal stoichiometry validation (GLORI/SAC-seq/m6Anet mod_ratio).

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Implements input and output validation guardrails for LLM-powered applications to prevent prompt injection, data leakage, toxic content generation, and hallucinated outputs. Builds a security validation pipeline using NVIDIA NeMo Guardrails Colang definitions, custom Python validators for PII Tespit and content policy enforcement, and the Guardrails AI framework for structured output validation. The guardrails system intercepts both user inputs (blocking injection attempts, stripping PII, ...

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Add checks to LLM prompts and responses using Llama Guard 3, NeMo Guardrails, and LLM Guard. Configure content screening, conversation boundaries, and sensitive-data filtering, then measure blocking and false-positive rates with labeled test prompts.

• Adding runtime safety checks to LLM, RAG, or agent apps
• Screening prompts for injection and jailbreak attempts
• Filtering sensitive or toxic model responses

Write JavaScript for n8n Code nodes to aggregate, filter, and transform workflow data. Guidance covers data access, output formats, execution modes, common errors, and performance choices when processing large numbers of records.

• Aggregating and deduplicating multiple records
• Transforming complex API responses
• Fixing data access and return format errors

Create or improve unit tests for Apache ShardingSphere classes. Cover the target class’s behavior and affected branches, verify explicitly requested coverage goals, and consolidate suitable scenarios into parameterized tests, which run the same checks with different inputs.

• Add missing unit tests for a target class
• Verify an explicitly requested coverage target
• Consolidate suitable tests with different input data

Extracts, filters, annotates, and exports differential expression results from DESeq2 or edgeR with proper handling of padj=NA (independent filtering, Cook's outliers, all-zero), multiple-testing correction choice (BH vs Storey q-value vs IHW vs lfsr), TREAT vs post-hoc fold-change filtering, p-value histogram diagnostics, gene annotation via org.db/biomaRt/mygene, GSEA preranked input, ORA background construction, replication reality (Schurch 2016 small-n result), and SABV/sex-stratified reporting. Use when extracting and interpreting DE results, troubleshooting padj=NA, choosing FDR method, preparing ranked lists for pathway analysis, annotating gene IDs, or comparing DESeq2 vs edgeR outputs.

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DepMap CRISPR gene effect (Chronos) analysis: sign convention for essentiality, per-gene NaN-safe Spearman correlation, data loading/alignment. For general NaN-safe correlation see nan-safe-correlation; for quality filtering see degenerate-input-filtering.

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Patterns for handling commands, validating input, and filtering messages in XMTP agents. Use when implementing slash commands, validators, or message filters. Triggers on command handling, input validation, or type guards.

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Extracts, filters, annotates, and exports differential expression results from DESeq2 or edgeR with proper handling of padj=NA (independent filtering, Cook's outliers, all-zero), multiple-testing correction choice (BH vs Storey q-value vs IHW vs lfsr), TREAT vs post-hoc fold-change filtering, p-value histogram diagnostics, gene annotation via org.db/biomaRt/mygene, GSEA preranked input, ORA background construction, replication reality (Schurch 2016 small-n result), and SABV/sex-stratified reporting. Use when extracting and interpreting DE results, troubleshooting padj=NA, choosing FDR method, preparing ranked lists for pathway analysis, annotating gene IDs, or comparing DESeq2 vs edgeR outputs.

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Modelo de moderação especializado 7-8B do Meta para filtragem de entrada/saída de LLM. 6 categorias de segurança - violência/ódio, conteúdo sexual, armas, substâncias, automutilação, planejamento criminal. Precisão de 94-95%. Deploy com vLLM, HuggingFace, Sagemaker. Integra com NeMo Guardrails.

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Extracts, filters, annotates, and exports differential expression results from DESeq2 or edgeR with proper handling of padj=NA (independent filtering, Cook's outliers, all-zero), multiple-testing correction choice (BH vs Storey q-value vs IHW vs lfsr), TREAT vs post-hoc fold-change filtering, p-value histogram diagnostics, gene annotation via org.db/biomaRt/mygene, GSEA preranked input, ORA background construction, replication reality (Schurch 2016 small-n result), and SABV/sex-stratified reporting. Use when extracting and interpreting DE results, troubleshooting padj=NA, choosing FDR method, preparing ranked lists for pathway analysis, annotating gene IDs, or comparing DESeq2 vs edgeR outputs.

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Extracts, filters, annotates, and exports differential expression results from DESeq2 or edgeR with proper handling of padj=NA (independent filtering, Cook's outliers, all-zero), multiple-testing correction choice (BH vs Storey q-value vs IHW vs lfsr), TREAT vs post-hoc fold-change filtering, p-value histogram diagnostics, gene annotation via org.db/biomaRt/mygene, GSEA preranked input, ORA background construction, replication reality (Schurch 2016 small-n result), and SABV/sex-stratified reporting. Use when extracting and interpreting DE results, troubleshooting padj=NA, choosing FDR method, preparing ranked lists for pathway analysis, annotating gene IDs, or comparing DESeq2 vs edgeR outputs.

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Build reusable command-line scripts that fetch and process Hugging Face API data. Combine multiple requests, enrich model information, and produce outputs for further filtering, with built-in help and usage examples for repeated tasks.

• Automating repeated model and dataset lookups
• Combining trending models with metadata and paper links
• Extracting licenses and tags from model cards