Software and Data Downloads¶
Note: This page will be discontinued. Please visit my new webpage HERE and update your bookmarks.
Link to my GitHub profile: HERE Here is a list of the software developed in my lab.Table of Contents
- Software and Data Downloads
- MILAMP: Amyloid Prediction
- AMAP: Antimicrobial activity prediction
- LUPI SVM for binding affinity prediction
- Deep-PHURIE: Deep learning based PIEAS Hurricane Intensity Estimator
- PHURIE: PIEAS Hurricane Intensity Estimator
- Hepatic-Index: Prediction of liver surface irregularities for cirrhosis prediction
- Hepaticus: Ultrasound image data collection server
- HoPItor: Host-pathogen protein-protein interaction prediction server
- CoreHist: Annotation of cellular nuclei in histopathology images
- ISLAND: Binding affinity prediction for protein complexes
- CaMels: Prediction of interactions and binding sites of Calmodulin
- pRANK: Prion prediction and domain localization
- CAFÉ-Map: A machine learning method for Context-aware feature mapping
- pyLemmings: Multiple Instance Learning toolbox for python
- Scrambled-Eggs: VBA application for randomizing options in multiple choice questions
- Locality Constrained Coding in Python
- PAIRpred: Partner-aware prediction of interfaces and binding sites in protein complexes
- MI-1: Prediction of Calmodulin interactions and binding sites
- RAMClustR: Assigning precursor-product ion relationships in indiscriminant MS/MS data
- CAIM: Context Aware Image Manipulation
- IMAGINE: Microscopy image processing tool
MILAMP¶
MILAMP: Multiple Instance Learning of Amyloid Proteins. Webserver available HERE. Code available HERE
Deep-PHURIE¶
Deep-PHURIE: Deep-learning based PIEAS Hurricane Intensity Estimator -- A machine learning model for predicting the intensity of a hurricane from infrared imagery. Webserver available HERE. Python Implementation available HERE.
PHURIE¶
PHURIE: PIEAS Hurricane Intensity Estimator -- A machine learning model for predicting the intensity of a hurricane from infrared imagery. Webserver available HERE.
AMAP¶
AMAP: A machine learning predictor for antimicrobial activity. The webserver for this method is available HERE.
LUPI-SVM¶
LUPI-SVM based classification of protein complexes using binding affinity. The webserver for this method is available HERE. The code for LUPI is available HERE.
Hepatic-Index¶
HepaticIndex: Predicts Liver Cirrhosis from ultrasound images. You can access the webserver HERE
Hepaticus¶
Hepaticus: Is a data acquisition system for ultrasound images of liver ultrasounds. Send us an email if you would like to sign-up as a contributor. You can access the webserver HERE
HoPItor¶
HoPItor: Host-Pathogen Protein Interaction Prediction. You can access the webserver HERE. You can access the sourcecode for running large-scale experiments HERE
CoreHist¶
CoreHist: Send the authors an email for the code. The code will be released after the publication of our under-preparation article on the subject. You can access the webserver HERE
ISLAND¶
ISLAND: In SiLlico protein AffiNity preDictor is a tool we have developed to predict binding affinity of proteins in protein complexes. It is available as a WEBSERVER and is a part of our under-preparation article on the subject. The code for ISLAND will also be available after the acceptance of our paper.
CaMels¶
CaMels: Calmodulin (CaM) intEraction Learning System is a tool we have developed to predict binding sites and interactions of proteins with CaM. It is available as a WEBSERVER and is a part of our under-preparation article on the subject.
pRANK¶
pRANK: Prion RANKing and Classification is a method for predicting prionogenicity of proteins using machine learning and identifying the prion domain in such proteins. A webserver for pRANK is available HERE. The code available HERE can be used to reconstruct the results given in our journal manuscript.
CAFÉ-Map¶
You can access our article "CAFÉ-Map: Context Aware Feature Mapping for mining high dimensional biomedical data" HERE. The code is available HERE.
pyLemmings¶
pyLemmings is a PYthon based Large Margin Multiple INstance learninG System. The code is available HERE.
Scrambled-Eggs¶
It is a Visual Basic for Applications (VBA) macro for shuffling or scrambling elements of a table for randomizing the options in multiple choice questions. Helps in making exams! For more details go here.
Locality Constrained Coding in Python¶
This is an implementation of Locality Constrained Coding in Python! For more details go here.
PAIRpred¶
PAIRpred predicts protein-protein interfaces from sequence and structure. You can access its webserver here. You can access the code of the published version here.
MI-1¶
MI1 is a method for predicting Calmodulin binding sites. It is available an online tool that biologists can use to obtain predictions for their proteins.
RAMClustR¶
RAMClustR is a method for Assigning precursor-product ion relationships in indiscriminant MS/MS data. It is available for download.
