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What Makes Manually Cleaning Data Challenging: Key Insights

November 18, 2024
10 Min Read

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:

  • Data volume and complexity
    Data flows in from diverse sources—social media, IoT sensors, CRM systems—each with its own structure. Manually harmonizing these data types becomes daunting as volume grows. 

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.

It is vital to implement a preliminary data filtering process that segments data by source and type before cleaning. This prioritizes high-impact datasets and reduces initial complexity.

  • High potential for human error
    Manual data cleaning is prone to mistakes. Even a small error, such as a misclassified entry or overlooked duplicate, can corrupt the dataset and lead to costly outcomes. 

In financial services, merging similar customer profiles without verifying unique identifiers may result in incorrect credit assessments.

It is necessary to introduce verification steps, such as double-checking unique identifiers, at critical stages. Additionally, you must use predefined rules and templates to standardize entries and minimize discrepancies.

  • Time-consuming and labor-intensive process
    Identifying duplicates, standardizing formats, and validating consistency requires extensive time and labor. This often shifts data scientists' focus away from strategic projects. 

For instance, telecom analysts often spend days standardizing billing data to match CRM records, leaving them with limited time for predictive analysis.

It is important to allocate specific team members or time blocks to handle routine data cleaning. You also need to document best practices for common cleaning tasks to streamline repetitive processes.

  • Difficulty in maintaining consistency and standardization

Inconsistent data—whether in date formats, categorical labels, or measurement units—poses a major obstacle to manual cleaning. 

In healthcare, patient data from different departments often arrives in inconsistent formats, making it difficult to create comprehensive, unified patient histories.

It is vital to establish a standardized data schema with clear formatting rules and validation checks. This would reduce manual adjustments and ensure 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:

  • Standardize formats across systems: Establishing uniform data formats across the organization reduces inconsistency and improves data quality. 

In the retail sector, Walmart sets standard formats for product data across its global inventory. This ensures that data from suppliers, warehouses, and stores can seamlessly integrate, thus improving supply chain efficiency.

  • Implement data validation rules: Validation rules detect errors at the point of entry, preventing bad data from entering the system. 

In healthcare, Mayo Clinic uses data validation rules in patient intake systems to ensure accurate data capture from the start. This reduces manual corrections later and helps maintain critical accuracy in patient records and treatment plans.

  • Regular data audits: Periodic audits help identify persistent issues and ensure continuous improvement. 

Amazon conducts regular data audits across its inventory and logistics systems to identify discrepancies and ensure product availability. These audits prevent stock mismatches and improve overall operational reliability.

  • Create a centralized data management system: Centralizing data storage provides consistent, verified information across departments. 

Spotify consolidates user data from multiple sources, such as playlists, listening habits, and social interactions, into a central data management system. This unified view allows Spotify to deliver accurate, personalized recommendations in real time.

  • Encourage data ownership and accountability: Assigning data ownership roles promotes accountability for data quality. 

JPMorgan Chase assigns data stewards in each business unit to monitor and maintain the accuracy of financial and compliance data. This approach reduces errors in critical reports and reinforces 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 labor-intensive and introduces risks, such as errors, inconsistencies, and inefficiencies, that can compromise crucial business insights. 

Implementing best practices such as standardized formats, validation rules, and automation tools can reduce these risks, but a holistic solution is essential for lasting impact. 

Acceldata’s data observability platform delivers clean, trustworthy data across your organization to empower your teams to make confident, informed decisions.

Book a demo today to see how Acceldata can eliminate manual data challenges and help you realize your data’s potential.

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