Black Reads in IGV - Long Read Sequencing Analysis

MeliBio

Junior Member

Join Date: Feb 2025

Posts: 4
- Share
- Tweet
#1

Black Reads in IGV - Long Read Sequencing Analysis

02-26-2025, 03:04 AM

Hi everyone,

I'm currently analyzing a long-read sequencing dataset and have encountered an issue in IGV. Some of my reads appear completely black (see attached image). I’m not sure what this means—could it indicate poor mapping quality, low confidence alignments, or something else?

Does anyone know what black-colored reads represent in IGV for long-read sequencing data? Any insights would be greatly appreciated!

Thanks in advance!

1 Photo
Tags: None

Previous template Next

Pathogen Surveillance with Advanced Genomic Tools

by seqadmin

The COVID-19 pandemic highlighted the need for proactive pathogen surveillance systems. As ongoing threats like avian influenza and newly emerging infections continue to pose risks, researchers are working to improve how quickly and accurately pathogens can be identified and tracked. In a recent SEQanswers webinar, two experts discussed how next-generation sequencing (NGS) and machine learning are shaping efforts to monitor viral variation and trace the origins of infectious...
- Channel: Articles
Yesterday, 11:48 AM
New Genomics Tools and Methods Shared at AGBT 2025

by seqadmin

This year’s Advances in Genome Biology and Technology (AGBT) General Meeting commemorated the 25^th anniversary of the event at its original venue on Marco Island, Florida. While this year’s event didn’t include high-profile musical performances, the industry announcements and cutting-edge research still drew the attention of leading scientists.

The Headliner
The biggest announcement was Roche stepping back into the sequencing platform market. In the years since...
- Channel: Articles
03-03-2025, 01:39 PM
Investigating the Gut Microbiome Through Diet and Spatial Biology

by seqadmin

The human gut contains trillions of microorganisms that impact digestion, immune functions, and overall health¹. Despite major breakthroughs, we’re only beginning to understand the full extent of the microbiome’s influence on health and disease. Advances in next-generation sequencing and spatial biology have opened new windows into this complex environment, yet many questions remain. This article highlights two recent studies exploring how diet influences microbial...
- Channel: Articles
02-24-2025, 06:31 AM

Topics	Statistics	Last Post
AI Tool Creates High-Resolution 3D Maps of the Mouse Brain by seqadmin Started by seqadmin, 03-20-2025, 05:03 AM	0 responses 26 views 0 reactions	Last Post by seqadmin 03-20-2025, 05:03 AM
Studying Microbial Gene Transfer with RNA Barcoding by seqadmin Started by seqadmin, 03-19-2025, 07:27 AM	0 responses 33 views 0 reactions	Last Post by seqadmin 03-19-2025, 07:27 AM
Mapping the snoRNAome in Zebrafish to Advance Disease Research by seqadmin Started by seqadmin, 03-18-2025, 12:50 PM	0 responses 25 views 0 reactions	Last Post by seqadmin 03-18-2025, 12:50 PM
TIGR Systems Offer a Compact Alternative to CRISPR for Gene Editing by seqadmin Started by seqadmin, 03-03-2025, 01:15 PM	0 responses 190 views 0 reactions	Last Post by seqadmin 03-03-2025, 01:15 PM

Seqanswers Leaderboard Ad

Black Reads in IGV - Long Read Sequencing Analysis

Latest Articles

ad_right_rmr

News