Warp Analysis Research Pipelines
The Warp Analysis Research Pipelines (WARP) repository is a collection of cloud-optimized pipelines for processing biological data from the Broad Institute Data Scienc…
Warp Analysis Research Pipelines
The Warp Analysis Research Pipelines (WARP) repository is a collection of cloud-optimized pipelines for processing biological data from the Broad Institute Data Sciences Platform and collaborators.
WARP provides robust, standardized data analysis for the Broad Institute Genomics Platform and large consortia like the Human Cell Atlas and the BRAIN Initiative. WARP pipelines are rigorously scientifically validated, high scale, reproducible and open source, released under the BSD 3-Clause license.
Pipeline releases
All pipeline releases are listed on the WARP releases page. To discover and search releases, use the WARP command-line tool Wreleaser.
WARP Dockers and custom tools in warp-tools repository
All Dockers and custom tools used for WARP's WDL Workflows are maintained in a separate repository, warp-tools.
WARP documentation
Read more about our pipelines and repository on the WARP documentation site.
To contribute to WARP, please read the contribution guidelines.
Citing WARP
When citing WARP, please use the following:
Degatano, K.; Awdeh, A.; Dingman, W.; Grant, G.; Khajouei, F.; Kiernan, E.; Konwar, K.; Mathews, K.; Palis, K.; Petrillo, N.; Van der Auwera, G.; Wang, C.; Way, J.; Pipelines, W. WDL Analysis Research Pipelines: Cloud-Optimized Workflows for Biological Data Processing and Reproducible Analysis. Preprints 2024, 2024012131. https://doi.org/10.20944/preprints202401.2131.v1
ANTIFRICTION-WEAR-RESISTANT POLYMER COMPOSITE MATERIAL BASED ON A HYBRID COMPOSITION OF EPOXIDE AND PHENOL-FORMALDEGIDE REACTOPLAST RESINES
August, 2026 • Dataset • HSR (London), Houghton Street Review
Lutfillo Bakirov, Worldly Knowledge Publishing Centre
This thesis investigates the thermal stability and adhesion properties of an anti-friction polymer composite material based on a hybrid reactoplast matrix with a 1:1 mass ratio of ED-20 epoxy an…
This thesis investigates the thermal stability and adhesion properties of an anti-friction polymer composite material based on a hybrid reactoplast matrix with a 1:1 mass ratio of ED-20 epoxy and phenol-formaldehyde resins. Local kaolin, carbonized coke, and Type E glass fiber were used as fillers, and the thermal stability of the composites was evaluated using the TGA/DTA method. The research results showed that the hybrid matrix significantly increases its vitrification temperature, adhesion to metal surfaces, and wear resistance.
xQSM — an octave-convolutional, noise-regularized U-Net for QSM dipole inversion. Consumes the local (tissue) field in ppm and produces susceptibility (ppm) using the pretrained in-vivo checkpoint. Th…
xQSM — an octave-convolutional, noise-regularized U-Net for QSM dipole inversion. Consumes the local (tissue) field in ppm and produces susceptibility (ppm) using the pretrained in-vivo checkpoint. The octave convolution adds an X-shaped multi-resolution feature exchange on a U-net backbone with a noise-adding regularization layer. Runs CPU-only with PyTorch (no GPU); the network auto zero-pads each dimension to a multiple of 8, so there is no fixed matrix size.
QSM-CI reconstruction method xqsm. Browse and run it at https://qsmxt.github.io/QSM-CI/submission.html?method=xqsm.
Weak-Harmonic QSM: jointly estimates susceptibility and a residual harmonic background field, correcting imperfect background-field removal.
QSM-CI reconstruction method wh-qsm. Browse and run it at h…
Weak-Harmonic QSM: jointly estimates susceptibility and a residual harmonic background field, correcting imperfect background-field removal.
QSM-CI reconstruction method wh-qsm. Browse and run it at https://qsmxt.github.io/QSM-CI/submission.html?method=wh-qsm.
Zhenghan Fang, Hyeong-Geol Shin, Peter van Zijl, Xu Li, Jeremias Sulam
WaveSep — a wavelet-based iterative approach for susceptibility source separation. It splits net susceptibility (χ_total/QSM) into paramagnetic (χ+, iron) and diamagnetic (χ−, myelin·calcium) sources …
WaveSep — a wavelet-based iterative approach for susceptibility source separation. It splits net susceptibility (χ_total/QSM) into paramagnetic (χ+, iron) and diamagnetic (χ−, myelin·calcium) sources using an R2' map to break the para/dia degeneracy, under two voxel-wise data-fidelity terms (χ+ + χ− ≈ χ_total, χ+ − χ− ≈ R2'/Dr) and a wavelet-domain L1 sparsity prior solved by proximal gradient (soft-thresholding, db4). Pure Python on CPU — no network, no pretrained weights, no GPU.
QSM-CI reconstruction method wavesep. Browse and run it at https://qsmxt.github.io/QSM-CI/submission.html?method=wavesep.
Variable-radius SHARP: SMV deconvolution with a spatially varying kernel radius.
QSM-CI reconstruction method vsharp. Browse and run it at https://qsmxt.github.io/QSM-CI/submission.html?method=vsharp.
Berkin Bilgic, Audrey P. Fan, Jonathan R. Polimeni, Stephen F. Cauley, Marta Bianciardiet al.
Total Variation regularized dipole inversion solved with ADMM.
QSM-CI reconstruction method tv. Browse and run it at https://qsmxt.github.io/QSM-CI/submission.html?method=tv.
Truncated Singular Value Decomposition inversion.
QSM-CI reconstruction method tsvd. Browse and run it at https://qsmxt.github.io/QSM-CI/submission.html?method=tsvd.
Karin Shmueli, Jacco A. de Zwart, Peter van Gelderen, Tie-Qiang Li, Stephen J. Doddet al.
Thresholded K-space Division: direct inversion with the dipole kernel thresholded.
QSM-CI reconstruction method tkd. Browse and run it at https://qsmxt.github.io/QSM-CI/submission.html?method=tkd.
Berkin Bilgic, Itthi Chatnuntawech, Audrey P. Fan, Kawin Setsompop, Stephen F. Cauleyet al.
Closed-form L2 (Tikhonov) regularized inversion.
QSM-CI reconstruction method tikhonov. Browse and run it at https://qsmxt.github.io/QSM-CI/submission.html?method=tikhonov.
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