Vaibhav Rajan

85 papers A* 12B 3C 11Journal 43Unranked 15
YearRankTypeTitle / Venue / Authors
2025 J jnl
IEEE J. Biomed. Health Informatics
Prakash Chandra Sukhwal, Vaibhav Rajan, Atreyi Kankanhalli
2025 J jnl
CoRR
Ishan Deshpande, Amandeep Kaur Reehal, Chandan Nath, Renu Singh, Aayush Patel, Aishwarya Jayagopal, Gaurav Singh, Gaurav Aggarwal, Amit Agarwal, Prathmesh Bele, Sridhar Reddy, Tanya Warrier, Kinjal Singh, Ashish Tendulkar, Luis Pazos Outon, Nikita Saxena, Agata Dondzik, Dinesh Tewari, Shruti Garg, Avneet Singh, Harsh Dhand, Vaibhav Rajan, Alok Talekar
2025 A* conf
ICLR
Aishwarya Jayagopal, Yanrong Zhang, Robert John Walsh, Tuan Zea Tan, Anand D. Jeyasekharan, Vaibhav Rajan
2025 J jnl
CoRR
Aditi Agarwal, Anjali Jain, Nikita Saxena, Ishan Deshpande, Michal Kazmierski, Abigail Annkah, Nadav Sherman, Karthikeyan Shanmugam, Alok Talekar, Vaibhav Rajan
2024 conf
SUMAC@ ACM Multimedia
Sander Münster, Jonas Bruschke, Daniel Dworak, Dávid Komorowicz, Vaibhav Rajan, Dominik Ukolov
2024 J jnl
CoRR
Prakash Chandra Sukhwal, Vaibhav Rajan, Atreyi Kankanhalli
2024 J jnl
IEEE J. Biomed. Health Informatics
Herty Liany, Aishwarya Jayagopal, Dachuan Huang, Jing Quan Lim, Nur Izzah NBH, Anand Jeyasekharan, Choon Kiat Ong, Vaibhav Rajan
2024 A* conf
ICLR
Hansheng Xue, Vijini Mallawaarachchi, Lexing Xie, Vaibhav Rajan
2024 J jnl
IEEE J. Biomed. Health Informatics
Suparna Ghanvatkar, Vaibhav Rajan
2024 J jnl
CoRR
Siva Rajesh Kasa, Yijie Hu, Santhosh Kumar Kasa, Vaibhav Rajan
2024 A* conf
KDD
Aishwarya Jayagopal, Hansheng Xue, Ziyang He, Robert J. Walsh, Krishna Kumar Hariprasannan, David Shao Peng Tan, Tuan Zea Tan, Jason J. Pitt, Anand D. Jeyasekharan, Vaibhav Rajan
2024 J jnl
CoRR
Aishwarya Jayagopal, Hansheng Xue, Ziyang He, Robert J. Walsh, Krishna Kumar Hariprasannan, David Shao Peng Tan, Tuan Zea Tan, Jason J. Pitt, Anand D. Jeyasekharan, Vaibhav Rajan
2024 A* conf
ICML
Kumar Shubham, Aishwarya Jayagopal, Syed Mohammed Danish, Prathosh A. P., Vaibhav Rajan
2024 J jnl
CoRR
Kumar Shubham, Aishwarya Jayagopal, Syed Mohammed Danish, Prathosh AP, Vaibhav Rajan
2023 J jnl
IEEE J. Biomed. Health Informatics
Shivin Srivastava, Vaibhav Rajan
2023 J jnl
Remote. Sens.
Vaibhav Rajan, Mila Koeva, Monika Kuffer, Andre Da Silva Mano, Shubham Mishra
2022 J jnl
IEEE J. Biomed. Health Informatics
Herty Liany, Yu Lin, Anand Jeyasekharan, Vaibhav Rajan
2022 C conf
ICIS
Prakash Chandra Sukhwal, Atreyi Kankanhalli, Vaibhav Rajan
2022 J jnl
CoRR
Shivin Srivastava, Kenji Kawaguchi, Vaibhav Rajan
2022 A* conf
NeurIPS
Hansheng Xue, Vaibhav Rajan, Yu Lin
2022 J jnl
CoRR
Hansheng Xue, Vaibhav Rajan, Yu Lin
2022 J jnl
Bioinform.
Ragunathan Mariappan, Aishwarya Jayagopal, Ho Zong Sien, Vaibhav Rajan
2022 A* conf
AAAI
Hansheng Xue, Vijini Mallawaarachchi, Yujia Zhang, Vaibhav Rajan, Yu Lin
2022 C conf
ICIS
Suparna Ghanvatkar, Vaibhav Rajan
2021 J jnl
CoRR
Shivin Srivastava, Siddharth Bhatia, Lingxiao Huang, Lim Jun Heng, Kenji Kawaguchi, Vaibhav Rajan
2021 C conf
ICIS
Siva Rajesh Kasa, Vaibhav Rajan
2021 J jnl
CoRR
Debabrata Mahapatra, Vaibhav Rajan
2021 C conf
ICIS
Wei Cui, Vaibhav Rajan, Zhenhui Jiang
2021 J jnl
Bioinform.
Vaibhav Rajan, Ziqi Zhang, Carl Kingsford, Xiuwei Zhang
2021 J jnl
ACM Trans. Manag. Inf. Syst.
Lin Qiu, Sruthi Gorantla, Vaibhav Rajan, Bernard C. Y. Tan
2021 J jnl
CoRR
Ragunathan Mariappan, Vaibhav Rajan
2021 A* conf
WWW
Hansheng Xue, Luwei Yang, Vaibhav Rajan, Wen Jiang, Yi Wei, Yu Lin
2021 J jnl
CoRR
Hansheng Xue, Luwei Yang, Vaibhav Rajan, Wen Jiang, Yi Wei, Yu Lin
2021 J jnl
CoRR
Hansheng Xue, Vijini Mallawaarachchi, Yujia Zhang, Vaibhav Rajan, Yu Lin
2020 C conf
ICIS
Abel Lim Jun Hong, Ragunathan Mariappan, Vaibhav Rajan
2020 C conf
ICIS
Prakash Chandra Sukhwal, Atreyi Kankanhalli, Vaibhav Rajan
2020 J jnl
Bioinform.
Siva Rajesh Kasa, Sakyajit Bhattacharya, Vaibhav Rajan
2020 J jnl
Bioinform.
Anuradha Wickramarachchi, Vijini Mallawaarachchi, Vaibhav Rajan, Yu Lin
2020 J jnl
CoRR
Siva Rajesh Kasa, Vaibhav Rajan
2020 A* conf
ICML
Debabrata Mahapatra, Vaibhav Rajan
2020 J jnl
CoRR
Ragunathan Mariappan, Vaibhav Rajan
2020 J jnl
Bioinform.
Herty Liany, Anand Jeyasekharan, Vaibhav Rajan
2019 C conf
ICIS
Lin Qiu, Vaibhav Rajan, Bernard C. Y. Tan
2019 A* conf
WWW
Lakshmanan Rakkappan, Vaibhav Rajan
2019 C conf
ICIS
Suparna Ghanvatkar, Vaibhav Rajan
2019 J jnl
Mach. Learn.
Ragunathan Mariappan, Vaibhav Rajan
2019 A* conf
AAAI
Sudeshna Roy, Meghana Madhyastha, Sheril Lawrence, Vaibhav Rajan
2018 conf
WWW (Companion Volume)
Debabrata Mahapatra, Ragunathan Mariappan, Vaibhav Rajan
2018 J jnl
CoRR
Ragunathan Mariappan, Vaibhav Rajan
2018 C conf
ICIS
Suparna Ghanvatkar, Vaibhav Rajan, Atreyi Kankanhalli
2018 conf
ACL (1)
Aishwarya Jadhav, Vaibhav Rajan
2018 J jnl
CoRR
Sudeshna Roy, Meghana Madhyastha, Sheril Lawrence, Vaibhav Rajan
2018 conf
WWW (Companion Volume)
Debabrata Mahapatra, Ragunathan Mariappan, Vaibhav Rajan, Kuldeep Yadav, Seby A., Sudeshna Roy
2017 A* conf
AAAI
Sakyajit Bhattacharya, Vaibhav Rajan, Harsh Shrivastava
2017 conf
EMBC
Abhishek Sengupta, A. P. Prathosh, Satya Narayan Shukla, Vaibhav Rajan, Chandan K. Reddy
2017 J jnl
Mach. Learn.
Lavanya Sita Tekumalla, Vaibhav Rajan, Chiranjib Bhattacharyya
2016 J jnl
CoRR
Abhishek Sengupta, Vaibhav Rajan, Sakyajit Bhattacharya, G. R. K. Sarma
2016 conf
EMBC
Abhishek Sengupta, Vaibhav Rajan, Sakyajit Bhattacharya, G. R. K. Sarma
2016 J jnl
Algorithms Mol. Biol.
Jun Zhou, Yu Lin, Vaibhav Rajan, William Hoskins, Bing Feng, Jijun Tang
2016 conf
PAKDD Workshops
Vaibhav Rajan, Sakyajit Bhattacharya, Ranjan Shetty, Amith Sitaram, G. Vivek
2016 A* conf
IJCAI
Vaibhav Rajan, Sakyajit Bhattacharya
2016 J jnl
IEEE Access
Vijay Huddar, Bapu Koundinya Desiraju, Vaibhav Rajan, Sakyajit Bhattacharya, Shourya Roy, Chandan K. Reddy
2015 conf
BIBM
Harsh Shrivastava, Vijay Huddar, Sakyajit Bhattacharya, Vaibhav Rajan
2015 J jnl
Hum. Comput.
Sakyajit Bhattacharya, Laura Elisa Celis, Deepthi Chander, Koustuv Dasgupta, Saraschandra Karanam, Vaibhav Rajan
2015 C conf
WABI
Jun Zhou, Yu Lin, Vaibhav Rajan, William Hoskins, Jijun Tang
2014 conf
BCB
Sakyajit Bhattacharya, Vaibhav Rajan, Vijay Huddar
2014 B conf
HCOMP
Saraschandra Karanam, Deepthi Chander, L. Elisa Celis, Koustuv Dasgupta, Vaibhav Rajan
2014 B conf
HCOMP
Deepthi Chander, Sakyajit Bhattacharya, L. Elisa Celis, Koustuv Dasgupta, Saraschandra Karanam, Vaibhav Rajan, Avantika Gupta
2014 conf
EMBC
Vijay Huddar, Vaibhav Rajan, Sakyajit Bhattacharya, Shourya Roy
2013 conf
WWW (Companion Volume)
L. Elisa Celis, Koustuv Dasgupta, Vaibhav Rajan
2013 conf
CHI Extended Abstracts
Koustuv Dasgupta, Vaibhav Rajan, Saraschandra Karanam, Kovendhan Ponnavaikko, Chithralekha Balamurugan, Nischal M. Piratla
2012 J jnl
IEEE ACM Trans. Comput. Biol. Bioinform.
Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2012 J jnl
Algorithms Mol. Biol.
Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2012
Vaibhav Rajan
2012 J jnl
Bioinform.
Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2011 conf
ISBRA
Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2011 C conf
WABI
Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2011 J jnl
J. Comput. Biol.
Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2010 J jnl
BMC Bioinform.
Yu Lin, Vaibhav Rajan, Krister M. Swenson, Bernard M. E. Moret
2010 conf
RECOMB-CG
Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2010 J jnl
BMC Bioinform.
Vaibhav Rajan, Andrew Wei Xu, Yu Lin, Krister M. Swenson, Bernard M. E. Moret
2010 J jnl
J. Comput. Biol.
Krister M. Swenson, Vaibhav Rajan, Yu Lin, Bernard M. E. Moret
2009 J jnl
J. Comput. Biol.
Krister M. Swenson, Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
2009 B conf
RECOMB
Krister M. Swenson, Vaibhav Rajan, Yu Lin, Bernard M. E. Moret
2008 conf
RECOMB-CG
Krister M. Swenson, Yu Lin, Vaibhav Rajan, Bernard M. E. Moret
yara/README.md
← Index yara/README.md markdown
# YARA Rules Directory

This folder contains YARA rules for scanning binary samples.

## Setting Up YARA-Forge Rules

To use the YARA-Forge rules from [https://github.com/YARAHQ/yara-forge](https://github.com/YARAHQ/yara-forge):

```bash
# Download the latest release
cd /path/to/redb/yara
# wget https://github.com/YARAHQ/yara-forge/releases/latest/download/yara-forge-rules-core.zip
wget https://github.com/YARAHQ/yara-forge/releases/latest/download/yara-forge-rules-extended.zip

# Extract rules
# unzip yara-forge-rules-core.zip
unzip yara-forge-rules-extended.zip
```

Available packages:
- `yara-forge-rules-core.zip` - Core rules (~5,000 rules)
- `yara-forge-rules-extended.zip` - Extended rules (~10,000 rules)
- `yara-forge-rules-full.zip` - Full rules (~11,000+ rules)

## Pre-compiling Rules (Recommended for Production)

For large rulesets like YARA-Forge, pre-compiling rules significantly improves startup time:

```bash
# Pre-compile all rules into a single .yarac file
python -m redb.extractors.yara --compile

# Or specify custom paths
python -m redb.extractors.yara --compile --rules-path /path/to/rules --output /path/to/output.yarac
```

This creates `yara/compiled_rules.yarac` which is loaded automatically on subsequent runs.

### Performance Comparison

| Method | First Scan Startup | Subsequent Scans |
|--------|-------------------|------------------|
| Source files (.yar) | ~10-30 seconds (11k rules) | Instant (cached) |
| Pre-compiled (.yarac) | ~1-2 seconds | Instant (cached) |

## Directory Structure

```
yara/
├── README.md
├── .gitkeep
├── compiled_rules.yarac    # (optional) Pre-compiled rules
├── packages/               # YARA-Forge packages
│   └── core/
│       └── *.yar
└── custom/                 # Your custom rules
    └── my_rules.yar
```

Rules are loaded in this priority:
1. `compiled_rules.yarac` (if exists) - fastest
2. All `.yar` and `.yara` files recursively - compiles on first run

## Usage

### Scan with YARA only

```bash
# Scan local files
python start.py --path /path/to/samples -y --repo my_repo --index_prefix redb

# Scan S3 samples
python start.py --s3 --repo bazaar -y --index_prefix redb

# Dry-run (print results instead of storing in ClickHouse)
python start.py --path /path/to/samples -y --dry-run --repo test --index_prefix redb
```

### Scan already-analyzed samples

Run YARA on samples that were previously analyzed (already in `basic_properties`).
Deduplication is handled by the `yara_matches` table — samples already scanned are
automatically excluded before processing begins:

```bash
# Scan all analyzed macho samples with YARA
python start.py --analyzed --magika macho -y --index_prefix redb

# Scan all analyzed PE samples with YARA
python start.py --analyzed --magika pe -y --index_prefix redb

# Scan all analyzed samples (no filetype filter)
python start.py --analyzed -y --index_prefix redb
```

### Partition large YARA runs by date

Combine `--analyzed` with `--range` to partition millions of samples into
manageable batches. Only samples in `basic_properties` AND within the date
range (by `first_seen` in `catalog_samples`) are processed:

```bash
# Scan analyzed PE samples from Feb 2025
python start.py --range 2025-02-01 2025-02-28 --analyzed --magika pebin -y --index_prefix redb

# Scan analyzed PE samples from first week of March 2025
python start.py --range 2025-03-01 2025-03-08 --analyzed --magika pebin -y --index_prefix redb
```

YARA dedup still applies — re-running a range safely skips already-scanned samples.

### Combined Features + YARA

Run feature extraction and YARA scanning together on the same samples:

```bash
# Local files with features + YARA
python start.py --path /path/to/samples --with-yara --repo my_repo --index_prefix redb

# S3 samples with features + YARA
python start.py --s3 --repo bazaar --with-yara --index_prefix redb
```

### Pre-compile Rules

```bash
# Compile and save to default location (yara/compiled_rules.yarac)
python -m redb.extractors.yara --compile

# Compile with custom paths
python -m redb.extractors.yara --compile --rules-path ./my_rules --output ./compiled.yarac
```

### Sync Rules to Database

Before batch scanning, sync rules to ensure all rule metadata is stored:

```bash
# Sync rules to database
python -m redb.extractors.yara --sync-rules

# Sync with custom source collection name
python -m redb.extractors.yara --sync-rules --source-collection yara-forge-core

# Compile and sync in one command
python -m redb.extractors.yara --compile --sync-rules
```

## ClickHouse Table Schema

YARA data uses a **normalized schema** with two tables for efficient storage.

### Matches Table: `yara_matches`

Stores one row per sample-rule match (optimized with binary sha256 and rule_id):

| Column | Type | Description |
|--------|------|-------------|
| sha256 | FixedString(32) | Binary SHA256 (32 bytes, use `hex(sha256)` to display) |
| rule_id | UInt64 | Unique rule identifier (xxHash64 of canonical rule content) |
| rule_name | LowCardinality(String) | YARA rule name (denormalized for convenience) |
| scan_date | DateTime64(3, 'UTC') | Scan timestamp |
| match_strings | Array(String) | Matched string identifiers |

### Rules Table: `yara_rules`

Stores rule metadata once per unique rule (deduplicated by rule_id):

| Column | Type | Description |
|--------|------|-------------|
| rule_id | UInt64 | Unique rule identifier (xxHash64 of canonical rule content) |
| rule_name | String | YARA rule name |
| source_collection | LowCardinality(String) | Source collection (e.g., 'yara-forge-core', 'malpedia') |
| ingested_at | DateTime64(3, 'UTC') | When this rule was ingested |
| rule_text | String | Full rule source code |
| rule_meta | JSON | Rule metadata (author, description, reference, etc.) |
| rule_tags | Array(LowCardinality(String)) | Rule tags |

### Schema Benefits

- **Binary SHA256**: 32 bytes vs 64 bytes (50% storage savings on hash columns)
- **UInt64 rule_id**: Fast joins and lookups via integer key
- **Content-based rule_id**: xxHash64 of canonical rule content (excluding metadata) for deduplication
- **Denormalized rule_name**: Allows queries without joins for common use cases

### Example Queries

```sql
-- Get matches with hex sha256
SELECT
    hex(m.sha256) as sha256,
    m.rule_name,
    m.match_strings
FROM yara_matches m
WHERE m.sha256 = unhex('abc123...')

-- Join with rules for full metadata
SELECT
    hex(m.sha256) as sha256,
    m.rule_name,
    m.match_strings,
    r.rule_meta,
    r.source_collection
FROM yara_matches m
JOIN yara_rules r ON m.rule_id = r.rule_id
WHERE m.sha256 = unhex('abc123...')

-- Find all samples matching a specific rule
SELECT hex(sha256), scan_date
FROM yara_matches
WHERE rule_name = 'APT_Lazarus_Loader'
ORDER BY scan_date DESC
```

## Environment Variables

| Variable | Description | Default |
|----------|-------------|---------|
| `YARA_RULES_PATH` | Override the YARA rules directory | `yara/` |
| `YARA_COMPILED_RULES` | Compiled rules filename | `compiled_rules.yarac` |
| `YARA_SOURCE_COLLECTION` | Default source collection name | `default` |