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Achievements

Achievement: Public SponsorAchievement: Pair Extraordinairex4Achievement: Pull Sharkx4Achievement: YOLOAchievement: QuickdrawAchievement: Mars 2020 ContributorAchievement: Arctic Code Vault ContributorAchievement: Starstruck

Achievements

Achievement: Public SponsorAchievement: Pair Extraordinairex4Achievement: Pull Sharkx4Achievement: YOLOAchievement: QuickdrawAchievement: Mars 2020 ContributorAchievement: Arctic Code Vault ContributorAchievement: Starstruck

Organizations

@conda-forge @fulcrumgenomics @bioconda @twinstrandbio @nf-core @seqwell @twinstrandbio-analytics @DetellaDx @PrimaryBio @Scantox-Group @fg-labs

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clintval/README.md

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I lead technical teams in biotech and write software for new genomics technologies. At Fulcrum Genomics you'll find me building tools and leading others in the fields of oncology, cell & gene editing, and precision medicine all while ensuring we deliver high-quality services to our clients and partners.

Featured

ProjectStackInstallWhat it does
chum Language Install with bioconda Evaluate baits in a hybrid selection panel.
krak Language Install with bioconda An addicting set of Kraken-enhancing tools.
unmux Language Install with bioconda Parse and demultiplex records, splitcode-style.
vartovcf Language Install with bioconda Stream VarDict variants into VCF v4.2.
streampile Language PyPI Release Forward-only pileups of SAM, BAM, and CRAM.
spillsort Language PyPI Release Sort more items than fit in memory.
neodisambiguate Language Install with bioconda Disambiguate reads mapped to multiple references.
bedspec Language PyPI Release An HTS-specs compliant BED toolkit.
cellme Language PyPI Release Make a truth-track VCF of a cell line's known mutations.
pybgzf Language PyPI Release Streaming BGZF with on-the-fly tabix and CSI indexing.
typeline Language PyPI Release Dataclasses to delimited text, round-trip with types.
ebs-autoscale Language GitHub Release Autoscaling EBS-backed scratch storage on AWS.

Elsewhere

LinkedIn Fulcrum Genomics Bioconda PyPI

Pinned Loading

  1. unmux unmux Public

    Flexible read parsing and demultiplexing to FASTX/SAM/BAM/CRAM

    Rust 2

  2. chaff chaff Public

    Separate somatic variant calls from library-preparation damage artifacts.

    Rust 1

  3. spillsort spillsort Public

    Sort more items than fit in memory: sorted runs spill to disk and merge as they are read.

    Rust

  4. streampile streampile Public

    Streaming, coordinate-advancing pileups over coordinate-sorted SAM and BAM files

    Rust 1

  5. bedspec bedspec Public

    An HTS-specs compliant BED toolkit

    Python 3 1

  6. typeline typeline Public

    Write dataclasses to delimited text formats and read them back again

    Python