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Clarification on StringTie's `--merge` parameters
stringtie stringtie-merge
updated 10 months ago by • 0 • written 18 months ago by ▴ 290
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Comment: Comment: Feature Counts: low assigned alignments (1.9%) with -s 0: Unstranded option any
12 months ago by DGTool ▴ 290
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1.5k
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Comment: Comment: genome annotation and GFF file formation
12 months ago by DGTool ▴ 290
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1.5k
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Comment: Comment: genome annotation and GFF file formation
12 months ago by DGTool ▴ 290
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Comment: Comment: How to do datamining in bioinformatics
13 months ago by DGTool ▴ 290
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1.3k
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Comment: Comment: how to find the number of exome bases covered in bam file
13 months ago by DGTool ▴ 290
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Comment: Comment: how to find the number of exome bases covered in bam file
13 months ago by DGTool ▴ 290
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567
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Comment: Comment: only ~12% of assigned reads on featurecount
13 months ago by DGTool ▴ 290
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615
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Answer: Answer: Selection Pressure Analysis
13 months ago by DGTool ▴ 290
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Comment: Comment: Are tens of DEGs still biologically meaningful?
13 months ago by DGTool ▴ 290
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2.5k
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Comment: Comment: featureCounts segmentation fault
13 months ago by DGTool ▴ 290
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Answer: Answer: Problem obtaining RNA-seq counts for whole gene (intron and exon), exon only, an
13 months ago by DGTool ▴ 290
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4.0k
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Comment: Comment: RNA-Seq mutation calling without germline data
13 months ago by DGTool ▴ 290
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1.5k
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Comment: Comment: Genome Assembly Workflow assessment
13 months ago by DGTool ▴ 290
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1
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4.0k
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Answer: Answer: RNA-Seq mutation calling without germline data
13 months ago by DGTool ▴ 290
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2.4k
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Comment: Comment: Structural Variants (SV) Manta output interpretation
13 months ago by DGTool ▴ 290
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2.4k
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Answer: Answer: Structural Variants (SV) Manta output interpretation
13 months ago by DGTool ▴ 290
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Comment: Comment: What type of graph or visualization would be most appropriate to represent this
14 months ago by DGTool ▴ 290
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1.1k
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Answer: Answer: gatk-funcotator data source
14 months ago by DGTool ▴ 290
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Answer: Answer: remove the letter a from a biplot in ggplot
14 months ago by DGTool ▴ 290
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838
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Comment: Comment: Weird correlation between RIP-seq replicates
14 months ago by DGTool ▴ 290
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2
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2.3k
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Answer: Answer: Books and Blogs guiding the programming practice in bioformatic research?
15 months ago by DGTool ▴ 290
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674
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Comment: Comment: Seeking Opinions on Pipeline for Detecting Somatic Variants and Rare Germline Mu
15 months ago by DGTool ▴ 290
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1
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940
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Answer: Answer: PROVEAN input for stop codon
16 months ago by DGTool ▴ 290
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0
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489
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Confusion about StringTie
stringtie
updated 16 months ago by 45k • written 16 months ago by ▴ 290
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2.0k
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Comment: Comment: Hmisc Package error
16 months ago by DGTool ▴ 290
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2.0k
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Answer: Answer: Hmisc Package error
16 months ago by DGTool ▴ 290
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2
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2.3k
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Comment: Comment: Nextflow process not executinhg
16 months ago by DGTool ▴ 290
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1.6k
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Comment: Comment: How to find genes with altered CNV from CNVkit output?
16 months ago by DGTool ▴ 290
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1
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2.2k
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Comment: Comment: How to Plot Heatmap for Lower Triangular Matrix Using R
16 months ago by DGTool ▴ 290
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1
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1.6k
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Answer: Answer: How to find genes with altered CNV from CNVkit output?
16 months ago by DGTool ▴ 290
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0
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914
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Comment: Comment: CNVkit heatmap RAM and Runtime
16 months ago by DGTool ▴ 290
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0
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558
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Comment: Comment: How to Predict Drug Targets Using Single-Sample RNA-Seq Data?
16 months ago by DGTool ▴ 290
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1.8k
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Comment: Comment: BAM File Quality Sequences Are "?" and File Size is Very Small After STAR Alignm
17 months ago by DGTool ▴ 290
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1
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4.0k
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Comment: Comment: Ensembl IDs <-> Gene Symbols mapping -- Using org.Hs.eg.db, biomaRt or EnsDb.Hsa
17 months ago by DGTool ▴ 290
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1
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4.0k
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Comment: Comment: Ensembl IDs <-> Gene Symbols mapping -- Using org.Hs.eg.db, biomaRt or EnsDb.Hsa
17 months ago by DGTool ▴ 290
2
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7
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Ensembl IDs <-> Gene Symbols mapping -- Using org.Hs.eg.db, biomaRt or EnsDb.Hsapiens.v86?
org.hs.eg.db EnsDb.Hsapiens.v86 biomaRt ensembl
updated 17 months ago by ▴ 430 • written 17 months ago by ▴ 290
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0
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607
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Using CNVkit for checking normal samples
CNV cnvkit
17 months ago by DGTool ▴ 290
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0
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608
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Answer: Answer: Alternative Database for Somatic Indel Realignment (COSMIC Alternative)
17 months ago by DGTool ▴ 290
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1
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1.3k
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Comment: Comment: GATK Structural Variants Pipeline - Steps
17 months ago by DGTool ▴ 290
0
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0
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382
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Tool for within-sample ligand-receptor analysis (bulk RNA-seq) ?
cell-cell communication ligand-receptor self-regulation
17 months ago by DGTool ▴ 290
0
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1
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1.9k
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Answer: Answer: Faster Needleman-Wunsch rapid global alignment of two sequences?
17 months ago by DGTool ▴ 290
0
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0
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878
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Comment: Comment: perseus software (version 1.5.5)
18 months ago by DGTool ▴ 290
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1.4k
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Answer: Answer: Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer ver
18 months ago by DGTool ▴ 290
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0
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1.3k
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Comment: Comment: Pluritest for pluripotency broken
18 months ago by DGTool ▴ 290
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1
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5.1k
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Comment: Comment: CNVKIT - unable to produce scatter and diagram pdfs
18 months ago by DGTool ▴ 290
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0
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612
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Confusion with somatic variant calling: Advice on Ensembl-compatible resources?
GATK Mutect2 ensembl
19 months ago by DGTool ▴ 290
47 results • Page 1 of 1
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