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Updated: Aug 3, 2025

Highly Multiplexed, Super-resolution Imaging of T Cells Using madSTORM
Published on: June 24, 2017
streammd: fast low-memory duplicate marking using a Bloom filter
1Department of Genome Informatics, QIMR Berghofer Medical Research Institute, Herston, QLD 4006, Australia.
Summary:
Identification of duplicate templates is a common preprocessing step in bulk sequence analysis; for large libraries, this can be resource intensive. Here, we present streammd: a fast, memory-efficient, single-pass duplicate marker operating on the principle of a Bloom filter. streammd closely reproduces outputs from Picard MarkDuplicates while being substantially faster, and requires much less memory than SAMBLASTER.
Availability And Implementation:
streammd is a C++ program available from GitHub https://github.com/delocalizer/streammd under the MIT license.
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