Beast code in Giters

Aru's starred repositories

ESCC_JUPITER06

Genomic Biomarker Analysis in JUPITER06 cohort

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scrnapip

A Systematic and Dynamic Pipeline for Single-Cell RNA Sequencing Analysis

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vdjdb-db

🗂️ [vdjdb.cdr3.net is up and running] Git-based TCR database storage & management. Submissions welcome!

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vdjmatch

⚙️ Matching T-cell repertoire against a database of TCR antigen specificities

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deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

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awesome-cancer-variant-databases

A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.

MIT29500

neusomatic

NeuSomatic: Deep convolutional neural networks for accurate somatic mutation detection

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mixcr

MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.

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gencore

Generate duplex/single consensus reads to reduce sequencing noises and remove duplications

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samplot

Plot structural variant signals from many BAMs and CRAMs

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fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

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common-workflow-language

Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊

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bamdst

a lightweight bam file depth statistical tool

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GeneFuse

Gene fusion detection and visualization

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MrBam

Query Mutated Reads from a Bam

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MutScan

Detect and visualize target mutations by scanning FastQ files directly

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AfterQC

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

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speedseq

A flexible framework for rapid genome analysis and interpretation

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