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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
BEERS2 Resource Report Resource Website |
BEERS2 (RRID:SCR_027287) | simulation software, software application, software resource, source code | Software for simulation of RNA-seq reads. Combines flexible and highly configurable design with detailed simulation of entire library preparation and sequencing pipeline and is designed to include effects of polyA selection and RiboZero for ribosomal depletion, hexamer priming sequence biases, GC-content biases in polymerase chain reaction (PCR) amplification, barcode read errors and errors during PCR amplification. | RNA-seq reads, simulation of RNA-seq reads, | NCATS 5UL1TR000003; NHLBI R01HL147472; NHLBI R01HL155934; NIGMS DP2GM146251 |
PMID:38605641 | Free, Available for download, Freely available | SCR_027287 | 2026-09-05 06:35:44 | 0 | |||||||||
|
demuxlet Resource Report Resource Website |
demuxlet (RRID:SCR_027855) | software application, software resource, source code | Software tool that harnesses natural genetic variation to determine the sample identity of each droplet containing a single cell (singlet) and detect droplets containing two cells (doublets). Genetic multiplexing of barcoded single cell RNA-seq. | Genetic multiplexing of barcoded single cell RNA-seq, harnesses natural genetic variation, | NHLBI K25HL121295; NIAID R21AI133337; NIAMSD R01AR071522; NIDCR R03DE025665; NIDDK F30DK115167 |
PMID:29227470 | Free, Available for download, Freely available | SCR_027855 | 2026-09-05 06:36:00 | 0 | |||||||||
|
Scooby Resource Report Resource Website |
Scooby (RRID:SCR_028110) | software application, software resource, source code | Software aplication to predict scRNA-seq coverage and scATAC-seq insertion profiles along the genome at single-cell resolution. It leverages the pre-trained multi-omics profile predictor Borzoi as a foundation model, equips it with a cell-specific decoder, and fine-tunes its sequence embeddings. | convolutional neural networks, predict RNA-seq coverage, scATAC-seq insertion profiles, Borzoi, cell-specific decoder, | European Research Council ; Gene Regulation Observatory at the Broad Institute of MIT & Harvard ; German Research Foundation ; NHGRI UM1 HG011986; NHLBI 5P01HL131477; NHLBI DP2 HL151353 |
PMID:41125796 | Free, Available for download, Freely available | SCR_028110 | 2026-09-05 06:36:06 | 0 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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