Related Experiment Video
Updated: Nov 5, 2025

BtM, a Low-cost Open-source Datalogger to Estimate the Water Content of Nonvascular Cryptogams
Published on: March 25, 2019
Bathometer: lightning fast depth-of-reads query
1Department for Molecular Biochemistry, Rudolf Schönheimer Institute of Biochemistry, University of Leipzig, 04103 Leipzig, Germany.
Motivation:
The query for the number of reads overlapping a given region is a common step in the analysis of Illumina sequencing data. Sometimes, these queries are not conveniently precomputable. It seems beneficial to make this kind of arbitrary query as fast and convenient as possible.
Results:
We present Bathometer, a tool that indexes BAM files in a space efficient way, which allows ad hoc queries for the number of reads overlapping any given genomic region to be answered much more quickly than by counting with common tools such as Samtools, while incurring much less disk I/O.
Availabilityand Implementation:
Bathometer is implemented in C, licensed under the GNU General Public License version 3+ and freely downloadable from Bitbucket (https://bitbucket.org/ustenzel/bathometer).
Supplementary Information:
Supplementary data are available at Bioinformatics online.
Related Concept Videos
Deriving the Speed of Sound in a Liquid
The speed of sound in fluids can be derived by considering a mechanical wave...
Testing Water Quality
Assessing Blood pressure using a doppler ultrasound
Pre-Procedural Guidelines for Doppler Ultrasound Blood Pressure Assessment:
Preparation of Equipment:
Equipments Used To Measure Blood Pressure
This invasive approach involves cannulating a peripheral artery. During each cardiac contraction, pressure generates mechanical motion within the catheter, transmitted through rigid, fluid-filled tubing to a transducer. This transducer converts mechanical motion into electrical signals displayed as waveforms on a monitor. An automatic flushing system prevents blood backflow. Due to the potential risk of unexpected arterial blood loss, this method is primarily used in intensive...

