Pinned Repositories
ai-biopsy
Biopsy-free prediction of prostate cancer aggressiveness using deep learning and radiology imaging
bioinformatics
Tool including several common bioinformatics software applications
CIN
cnn-smoothie
Deep Convolutional Neural Networks Enable Discrimination of Heterogeneous Digital Pathology Images
dgvar
Screening deleterious germline variants (DGVs) in WCM UC cohort
ERVmap
ERVmap is one part curated database of human proviral ERV loci and one part a stringent algorithm to determine which ERVs are transcribed in their RNA seq data.
hello-mess-nf
A Nextflow pipeline to experiment with DSL2 + Zero Mess
pmkb-bot
PMKB bot for the Precision Medicine Knowledge Base using Microsoft Bot Framework.
stork
Deep learning enables robust assessment and selection of human blastocysts after in vitro fertilization
stork-v
This project aims to enhance the assessment of fertilized human embryos, a critical step in the process of in vitro fertilization (VF). The research paper behind this project introduced BELA, the Blastocyst Evaluation Learning Algorithm, a novel model for embryo ploidy status prediction.
Englander Institute for Precision Medicine's Repositories
eipm/CIN
eipm/dgvar
Screening deleterious germline variants (DGVs) in WCM UC cohort
eipm/hello-mess-nf
A Nextflow pipeline to experiment with DSL2 + Zero Mess
eipm/pmkb-bot
PMKB bot for the Precision Medicine Knowledge Base using Microsoft Bot Framework.
eipm/ai-biopsy
Biopsy-free prediction of prostate cancer aggressiveness using deep learning and radiology imaging
eipm/beacon
Dockerized GA4GH Beacon
eipm/stork
Deep learning enables robust assessment and selection of human blastocysts after in vitro fertilization
eipm/bridge2ai-redcap
Bridge2AI Voice | REDCap
eipm/unity-workshop
R Lab XR in Healthcare Unity Workshop
eipm/cnn-smoothie
Deep Convolutional Neural Networks Enable Discrimination of Heterogeneous Digital Pathology Images
eipm/ERVmap
ERVmap is one part curated database of human proviral ERV loci and one part a stringent algorithm to determine which ERVs are transcribed in their RNA seq data.
eipm/bioinformatics
Tool including several common bioinformatics software applications
eipm/hello-nextflow
An hello world pipeline to test nextflow installations.
eipm/paper_trail
Track changes to your models' data. Good for auditing or versioning.
eipm/rnaseq-messaging
RNAseq pipeline to demonstrate use of messaging
eipm/stork-v
This project aims to enhance the assessment of fertilized human embryos, a critical step in the process of in vitro fertilization (VF). The research paper behind this project introduced BELA, the Blastocyst Evaluation Learning Algorithm, a novel model for embryo ploidy status prediction.
eipm/b2ai-peds-protocol
eipm/bowtie2
A fast and sensitive gapped read aligner
eipm/omero-server-docker
EIPM fork of OMERO.server production docker image, with OMERO.dropbox support added.
eipm/picard
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
eipm/SalmonTE
SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances
eipm/stork-a
eipm/STRIDES
Supporting the Azure + NIH STRIDES initiative
eipm/sunspot_autocomplete