yijieWang77

yijieWang77's Stars

• jmzeng1314/GEO

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• jmzeng1314/NGS-pipeline

  By study this, it won't be costly or time-consuming to customize a NGS data analysis pipeline

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• jmzeng1314/scRNA_smart_seq2

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• jmzeng1314/tcga_example

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• BrooksLabUCSC/flair

  Full-Length Alternative Isoform analysis of RNA

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• saezlab/decoupleR

  R package to infer biological activities from omics data using a collection of methods.

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• jmzeng1314/my-R

  a small collection for my R scripts

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• jmzeng1314/R_bilibili

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• rajewsky-lab/mirdeep2

  Discovering known and novel miRNAs from small RNA sequencing data

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• saketkc/gencode_regions

  Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files

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• jmzeng1314/AnnoProbe

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• olarerin/metaPlotR

  A Perl/R pipeline for plotting metagenes

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• lawremi/rtracklayer

  R interface to genome annotation files and the UCSC genome browser

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• ohlerlab/DeepRiPe

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• liucongcas/GLORI-tools

  bioinformatic pipeline for GLORI

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• YangLab/RADAR

  RADAR is devised to detect and visualize all possible twelve-types of RNA editing events from RNA-seq datasets.

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• ZhaiLab-SUSTech/FLEPSeq

  The analysis pipeline for FLEP-seq

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• RJWANGbioinfo/APAlyzer

  APAlyzer is a toolkit for bioinformatic analysis of alternative polyadenylation (APA) events using RNA sequencing data. Our main approach is the comparison of sequencing reads in regions demarcated by high-quality polyadenylation sites (PASs) annotated in the PolyA_DB database (https://exon.apps.wistar.org/PolyA_DB/v3/). The current version (v3.0) uses RNA-seq data to examine APA events in 3’ untranslated regions (3’UTRs) and in introns. The coding regions are used for gene expression calculation.

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• ohlerlab/Riboseq_Pipeline

  This is the Lab's standard Ribo-seq processing pipeline, a snakemake workflow and some R scripts.

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• WhiteLab/RiboSeq_pipeline

  A pipeline to process RiboSeq fastqs

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• ste-depo/INSPEcT

  INSPEcT (INference of Synthesis, Processing and dEgradation rates from Transcriptomic data) RNA-seq data in time-course experiments or different conditions, with or without the support of nascent RNA data.

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• ZhaiLab-SUSTech/Full_length_transcripts_analysis

  Computational pipeline for full-length transcripts with poly(A) tails.

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• neural-stem-cell-institute/screp

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• ohlerlab/clip_pipeline

  CLIP pipeline

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• Aimann/DifferentialExpression

  Set of R scripts to run DESeq2 using a variety of different methods

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• Aimann/IntronExonDistribution

  Small set of python scripts to map reads from mRNA sequencing data to the introns and exons of the longest protein coding gene transcripts in a given GTF file

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• amfrancette/Intron_Enrichment_Score

  The intronic enrichment score calculates the average coverage of RNA-seq reads over introns relative to neighboring exons in Saccharomyces cerevisiae. This score can be used to quantify enrichment of nascent transcripts from techniques such as 4tU-seq and TT-seq or to quantify defects in transcript splicing.

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• amitgefe/Human-IP_piRNA_classifier

  Confident detection of piRNA sequences in small-RNA seq data

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• mal2017/gte21-pirna-kd-rnaseq

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• susbo/Drosophila_unistrand_clusters

  Analysis of flamenco and other unistrand piRNA clusters across Drosophila

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