What Makes Manually Cleaning Data Challenging: Key Insights

November 18, 2024
8 minutes

Poor data quality is an unseen crisis that costs businesses billions of dollars each year. Businesses in the U.S. lose an estimated $3.1 trillion each year due to inaccurate, incomplete, or duplicate data. 

According to Anaconda’s 2022 State of Data Science Report, data scientists spend nearly 40% of their time on data preparation and cleansing. This isn’t merely a productivity drain; it severely limits their ability to innovate and uncover high-value insights.

Manual data cleaning is a critical bottleneck that traps skilled professionals in repetitive “cleanup” tasks, preventing them from focusing on analytics that drive informed decision-making. 

This article discusses the challenges of manual data cleaning—from resolving data inconsistencies to managing resource-heavy processes—and highlights tools and best practices to help organizations achieve cleaner, more reliable data at scale.

What Is Manual Data Cleaning?  

Manual data cleaning is the painstaking process of identifying and correcting issues such as duplication, errors, and inconsistencies to improve data quality

Unlike automated processes, manual cleaning requires human effort for each step—from spotting formatting discrepancies to consolidating entries across various sources. 

These tasks are highly resource-intensive, particularly for organizations dealing with data complexity across multiple departments. 

Here’s a breakdown of the essential steps in manual data cleaning:

  • Identification of duplicates: Manually locate and remove duplicate records across datasets to prevent redundancies and inaccuracies.
  • Rectification of entry errors: Identify and fix typos, mislabeling, and formatting inconsistencies that may disrupt analysis.
  • Standardization of formats: Align data formats (e.g., date, currency) to ensure consistency and ease of interpretation across reports.
  • Handling of missing values: Decide whether to fill, delete, or flag incomplete entries to maintain data integrity.
  • Removal of irrelevant data: Filter out non-essential data to focus on high-impact information that adds value.
  • Consistency validation: Ensure that data entries follow logical consistency rules, such as matching IDs across systems.
  • Final quality check: Verify cleaned data against the original to confirm accuracy and completeness. 

Common Challenges in Manual Data Cleaning  

Manual data cleaning poses several challenges, from overwhelming data volume to error-prone processes. 

Here’s what makes manually cleaning data challenging:

1. Data volume and complexity

Data flows in from diverse sources—social media, IoT sensors, and CRM systems—each with its own structure. As data volume grows, manually harmonizing these different formats becomes increasingly challenging. For example, an e-commerce retailer may struggle to align unstructured social media feedback with structured transaction data to gain a unified view of customer behavior. Implementing a preliminary data filtering process that segments data by source and type before cleaning is essential. This approach prioritizes high-impact datasets and reduces initial complexity.

2. High potential for human error

Manual data cleaning is prone to mistakes. Even a minor error, such as a misclassified entry or an overlooked duplicate, can corrupt the dataset and lead to costly consequences. In financial services, merging similar customer profiles without verifying unique identifiers may result in inaccurate credit assessments. To mitigate such risks, introducing verification steps—such as double-checking unique identifiers at critical stages—is crucial. Additionally, predefined rules and templates should be used to standardize entries and minimize discrepancies.

3. Time-consuming and labor-intensive process

Identifying duplicates, standardizing formats, and validating consistency require significant time and effort, often diverting data scientists from strategic initiatives. For instance, telecom analysts frequently spend days standardizing billing data to match CRM records, leaving limited time for predictive analysis. To streamline this process, allocating dedicated team members or time blocks for routine data cleaning is essential. Documenting best practices for common cleaning tasks can further enhance efficiency and reduce repetitive workloads.

4. Difficulty in maintaining consistency and standardization

Inconsistent data—whether in date formats, categorical labels, or measurement units—creates major obstacles in manual data cleaning. In healthcare, for example, patient records from different departments often arrive in varying formats, making it difficult to build a comprehensive patient history. Establishing a standardized data schema with clear formatting rules and validation checks is key to reducing manual adjustments and ensuring uniformity across datasets.

Key Issues in Handling Real-time and Streaming Data  

Handling real-time and streaming data presents unique challenges that manual data-cleaning methods cannot effectively address. 

Manual processes fall short for several reasons, but a quick solution can help bridge the gap:

  • Need for speed: Real-time and streaming data demands rapid, continuous processing, which manual methods simply cannot support without lag.
  • High stakes for accuracy: Industries such as finance rely on real-time data to make split-second trading decisions. Delays in cleaning and processing can result in missed market opportunities and financial losses.
  • Volume and variability: Streaming data arrives in high volumes and with diverse structures, making manual cleaning both impractical and unsustainable.
  • Increased risk of data gaps: Manual methods cannot always keep up with the data flow, leading to gaps or data inconsistencies that degrade data quality and analysis.


Use automated tools designed for real-time data validation and cleaning to maintain speed, accuracy, and consistency across incoming data streams.

Best Practices to Mitigate Manual Data Cleaning Challenges  

To minimize the limitations of manual data cleaning, organizations should adopt a set of best practices that improve data quality without overwhelming their teams. 

Here are some critical practices and real-world examples of companies using them effectively:

1. Standardize formats across systems

Establishing uniform data formats across an organization minimizes inconsistencies and improves data quality. In the retail sector, Walmart maintains standardized formats for product data across its global inventory, ensuring seamless integration between suppliers, warehouses, and stores. This standardization enhances supply chain efficiency and reduces data errors.

2. Implement data validation rules

Validation rules catch errors at the point of entry, preventing bad data from infiltrating the system. In healthcare, Mayo Clinic applies data validation rules in its patient intake systems, ensuring accurate data capture from the start. This reduces manual corrections later and maintains the integrity of patient records and treatment plans.

3. Regular data audits

Periodic audits help identify recurring data issues and drive continuous improvement. Amazon performs routine data audits across its inventory and logistics systems to detect discrepancies and ensure product availability. These proactive audits prevent stock mismatches and improve overall operational reliability.

4. Create a centralized data management system

Centralizing data storage ensures that departments access consistent, verified information. Spotify consolidates user data—including playlists, listening habits, and social interactions—into a central data management system. This unified approach enables accurate, real-time personalized recommendations for users.

5. Encourage data ownership and accountability

Assigning data ownership roles promotes accountability for data quality. JPMorgan Chase designates data stewards in each business unit to oversee financial and compliance data. This ensures accuracy in critical reports and strengthens data reliability across regulatory and operational functions.

These examples illustrate how organizations can effectively adopt best practices to maintain high data quality and improve operational outcomes.

Tools and Technologies to Support Data Cleaning  

Tools and technologies that support data cleaning have become invaluable due to the complexity of modern data environments. 

The following key technologies reduce manual workload significantly:

Tool category Application Implementation tip Example
Data profiling and automation tools Used for profiling data, assessing structure, and identifying inconsistencies before cleaning. These tools help streamline repetitive tasks, enabling data teams to handle large datasets more efficiently. Start with tools that offer automated profiling features to reduce manual assessment time. OpenRefine for smaller datasets or Acceldata for enterprise-grade data profiling and automation.
Data transformation software Enables data teams to convert raw data into standardized formats without extensive manual intervention. Often used in sectors such as retail and healthcare, transformation tools ensure consistency across customer and patient records. Leverage visual interfaces for easier management of complex transformations. Acceldata’s data transformation capabilities for scalable and consistent transformations across data sources.
Real-time processing platforms Facilitates rapid processing and validation for real-time and streaming data, allowing businesses to react instantly to incoming information. Critical in fields such as finance and e-commerce, these platforms maintain data accuracy and relevance. Use real-time validation to avoid data lags and inaccuracies in high-frequency data. Open-source options such as Apache Kafka or Acceldata Pulse for monitoring and managing real-time data pipelines.
Comprehensive data quality management solutions Offers end-to-end data quality control, automating tasks such as validation, deduplication, and data governance. These solutions are ideal for organizations handling large, distributed datasets with stringent quality requirements. Configure data quality rules to automate validations and reduce manual checks. Acceldata for robust data quality and observability across multiple departments and data streams.
Self-service data preparation platforms Designed for data blending and preparation, these platforms empower teams to handle ad-hoc data tasks without needing coding skills. Especially useful for improving responsiveness in customer service and marketing. Use drag-and-drop functionality for faster, scalable data preparation. Open-source libraries such as Pandas for lightweight preparation tasks or Acceldata’s data preparation features for enterprise use.

Eliminating Manual Data Cleaning Barriers With Acceldata

Manual data cleaning is time-consuming, error-prone, and often slows down critical business processes. Inconsistent formats, duplicate records, and incorrect entries create inefficiencies that hinder decision-making and reduce overall data reliability. While implementing best practices such as standardized formats and validation rules can help, enterprises need a more comprehensive approach to ensure long-term data accuracy and efficiency.

Acceldata’s data observability platform automates data quality monitoring, detects anomalies in real-time, and provides deep visibility into data health. By eliminating the need for extensive manual intervention, Acceldata ensures that businesses receive clean, accurate, trustworthy, and consistent data for analytics, reporting, and operational processes. With automated validation, proactive monitoring, and intelligent error detection, enterprises can reduce operational bottlenecks, enhance data governance, and improve overall efficiency.

Book a demo today to discover how Acceldata can transform your data management and unlock the full potential of your data assets.

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Shivaram P R

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