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Sergey Abramov

Publications and source records attributed to Sergey Abramov.

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Training Long-Context, Multi-Turn Software Engineering Agents with Reinforcement Learning

Research on applications of reinforcement learning (RL) to large language models has mostly been focused on single-turn problems, such as mathematical reasoning or single-shot code generation. While these problems can be viewed as token-level multi-turn Markov decision processes (MDPs), this view corresponds to a degenerate case of multi-turn interaction where the environment provides no feedback. This contrasts with many real-world domains, such as software engineering (SWE), which require rich multi-turn interactions with a stateful environment that responds to each action with a non-trivial observation. To bridge this gap, we demonstrate the successful application of RL to this general regime. Our methodology begins with rejection fine-tuning (RFT) using execution feedback to train a policy to follow instructions and formatting effectively, followed by a synchronous RL pipeline using DAPO for iterative improvement. Applying this pipeline to Qwen2.5-72B-Instruct, we increase its Pass@1 on the SWE-bench Verified benchmark from 11% to 39%, substantially improving upon the 20% RFT baseline. On the May and June splits of SWE-rebench, the resulting agent achieves Pass@1 of 35% and 31% respectively, competitive with even larger models such as DeepSeek-V3-0324 or Qwen3-235B-A22B, demonstrating that our methodology offers a practical approach for training capable agents for multi-turn interactive tasks using open-weight models.

cs.LG

MIXALIME: MIXture models for ALlelic IMbalance Estimation in high-throughput sequencing data

Modern high-throughput sequencing assays efficiently capture not only gene expression and different levels of gene regulation but also a multitude of genome variants. Focused analysis of alternative alleles of variable sites at homologous chromosomes of the human genome reveals allele-specific gene expression and allele-specific gene regulation by assessing allelic imbalance of read counts at individual sites. Here we formally describe an advanced statistical framework for detecting the allelic imbalance in allelic read counts at single-nucleotide variants detected in diverse omics studies (ChIP-Seq, ATAC-Seq, DNase-Seq, CAGE-Seq, and others). MIXALIME accounts for copy-number variants and aneuploidy, reference read mapping bias, and provides several scoring models to balance between sensitivity and specificity when scoring data with varying levels of experimental noise-caused overdispersion.

stat.AP