PulseGatePost-LLM software, agents & workflows market (since 2022)
Coverage
167,076

Apps indexed

 

Freshness
43 min ago

Last update

 

Cadence
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7-day average

Indexed today: 443

PulseGate

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© 2026 PulseGate. Operated by Dymaxio s.r.o., Prague, Czech Republic.·

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bam-dedup
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B

bam-dedup

pypi.org·Infrastructure

bam-dedup is an open-source command-line tool for fast deduplication of BAM files, supporting both PCR/optical and molecular/UMI consensus methods. It is designed for bioinformatics researchers who need efficient, JVM-free processing of sequencing data. The tool is MIT-licensed and suitable for integration into genomics pipelines.

Open SourceMIT
CLI
B
Visit PyPI↗

Overview

8 features
  • ✓BAM deduplication
  • ✓PCR duplicate removal
  • ✓Optical duplicate removal
  • ✓UMI consensus
  • ✓Fast processing
  • ✓JVM-free
  • ✓Command-line interface
  • ✓MIT license

Tags

bam-deduplicationumi-consensusbioinformatics-clipcr-duplicate-removalgenomics

Built with & integrations

Runs on
CLI

Trust & compliance

LicenseMIT
Verified signals
✓ HTTPS✓ Open Source✓ Free tier✓ GitHub

Recent events

Latest indexed changes and source events

  1. IndexedJul 7, 1:16 AM

    bam-dedup discovered by the PulseGate indexer

    Source: PulseGate indexerOpen ↗

At a glance

Platforms
Cli
Languages
English
Open source
Yes (GitHub)
License
MIT
First seen
Jul 7, 2026
Activity
🟢 Active
Status
🟢 Active
Built for
bioinformatics researchers
Model
Open source
Solves
Removing duplicate reads from BAM files efficiently without requiring a JVM, supporting both PCR/optical and UMI deduplication.

Developer

Caleb Lareau
↗ GitHub

Open source

View on GitHub →

PulseGate index

Confidence
Low · 64
Indexed
Jul 7, 2026
Lifecycle
Alive
Activity
Active
First seen
Jul 2026
Last seen
6d ago
Freshness
Unknown
Identity audit (9)
Entity ID
cmr9yk6ie05ce82mkee9fdcp2
Slug
bam-dedup-pypi-org
Verification state
Indexed for public listing
Claim / listing state
Unclaimed · listed: yes
Index status
Included in index
Latest evidence snapshot
Jul 7, 2026
Timeline basis
Indexed-at chronology (no inferred launch/funding milestones).
Last updated
Jul 7, 2026
Canonical URL
https://pypi.org/project/bam-dedup

Similar apps

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  • dotmatch
    pypi.org
  • nwave-dedup
    pypi.org
  • DedupX
    maheepk.net
  • mdaencore
    github.com
  • dupehell
    pypi.org
  • bdext
    github.com