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2
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1
answer
104
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1
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Removal of 'low' counts before DESeq2 - what threshold?
deseq2 threshold counts rna-seq written 28 days ago by dnljmrs • 10 • updated 28 days ago by Kevin Blighe ♦ 70k
0
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0
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123
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0
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RNAseq count - normalization
normalization expression counts rna-seq vst written 4 weeks ago by sabin • 30
13
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3
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6.3k
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8 follow
3
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Read Counts For Genes
read counts written 8.9 years ago by Varun Gupta • 1.2k • updated 10 weeks ago by jerry • 100
5
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2
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1.8k
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5 follow
2
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Which RNA-seq unit should be used in machine learning models?
machine learning rna-seq counts written 2.3 years ago by darklings • 200
0
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0
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158
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0
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Calculation of the genotype likelyhood from raw data
genotype likelihood bam samtools counts raw data written 4 months ago by vit.filippo • 50
1
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1
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440
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1
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Best normalization method to use with ChIP-seq counts
normalization featurecounts chip-seq counts edger written 6 months ago by science_lizard • 0 • updated 6 months ago by ATpoint ♦ 46k
0
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0
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271
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0
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Different number of sequences on the same file between two tools
sequencing bam genometools pacbio counts written 7 months ago by pablo • 160 • updated 6 months ago by Biostar ♦♦ 20
0
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1
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244
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1
answer
List of uniquely expressed genes
counts rna-seq written 6 months ago by Mozart • 250
0
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0
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293
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0
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How to extract reads on positive strand for a specific region from bam?
samtools rna-seq strand counts written 6 months ago by venkat • 0
2
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1
answer
527
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1
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Correlate ChIP-seq to gene expression
chip-seq featurecounts correlation counts rna-seq written 7 months ago by science_lizard • 0 • updated 7 months ago by rohitsatyam102 • 270
1
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1
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279
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1
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count reads (.sam) mapped to scaffolds with non-standard headers
samtools bbmap sam counts written 8 months ago by rakshy • 0
2
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1
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2.5k
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1
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Exporting Raw counts into .csv file from seurat object
csv raw counts seurat written 9 months ago by David_emir • 390 • updated 9 months ago by ccruizm.mv • 20
1
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0
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380
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0
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What causes strange oscillations in the count distribution of Salmon and STAR aligned gene tables?
htseq salmon star filtering counts written 11 months ago by Gabriel • 90
1
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0
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342
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0
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sample-specific filtering of counts matrix
deseq2 counts rna-seq condition written 11 months ago by Assa Yeroslaviz • 1.4k
0
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0
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247
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0
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DESeq2 counts (inverse relationship)
counts rna-seq written 12 months ago by gradstudentNew • 30 • updated 12 months ago by Istvan Albert ♦♦ 86k
1
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3
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752
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6 follow
3
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How to count total small RNAs (known and novel) in my aligned reads?
small rna counts srna written 17 months ago by abdul.suboor123 • 0 • updated 12 months ago by leukosnanos • 0
1
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0
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660
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0
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RNA seq library size
rnaseq counts written 13 months ago by felipead66 • 80
1
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0
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292
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0
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Is it logical to compare the expression FPKM with the percent methylation data at genes?
methylation counts rna-seq expression-methylation written 13 months ago by maria2019 • 130
1
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2
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1.0k
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2
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How can I normalise GDC TCGA HTSeq Count data (tumour only)
htseq tcga rna-seq normalisation counts written 15 months ago by joker33 • 30 • updated 15 months ago by mahmoud.s.fahmy • 0
4
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3
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1.8k
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5 follow
3
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Why you shouldn't normalize count data using gene-length AND library size for count analysis?
normalization metagenomics deseq2 tpm counts written 16 months ago by sundaresan.vinaik • 10
1
vote
1
answer
389
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1
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Predicted Proteins: Mapping Reads to ORFs
assembly mapping prodigal coverage counts written 18 months ago by Longshotx • 50 • updated 18 months ago by colindaven • 2.6k
8
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1
answer
773
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1
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Metric to use for RNAseq expression matrix
expression tpm counts rna-seq batch effect written 19 months ago by Ram ♦ 32k • updated 19 months ago by i.sudbery ♦ 11k
1
vote
0
answers
449
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0
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vcftools counts output not written to file
vcf frequency vcftools snp counts written 21 months ago by spider_monkey • 10 • updated 19 months ago by Biostar ♦♦ 20
7
votes
1
answer
761
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1
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see reads in .bam file, no counts after HTseq
htseq counts rna-seq written 20 months ago by emilybowie2 • 0 • updated 20 months ago by h.mon ♦ 32k
5
votes
1
answer
565
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5 follow
1
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Triplet frequencies in human genome
genome counts written 20 months ago by 9606 • 320 • updated 20 months ago by finswimmer ♦ 14k
2
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0
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966
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0
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how to compare 2 rna-seq counts with each other by python
counts rna-seq written 23 months ago by ali.hakimzadeh • 10
0
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0
answers
678
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0
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Low HTseq Feature Counts in Subset of RNA-seq Samples
htseq rnaseq feature counts alignment written 23 months ago by kmyers2 • 40
0
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0
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1.4k
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0
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How to get gene counts with HTseq
reads htseq counts rna-seq written 23 months ago by Michel Edwar • 70
2
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1
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825
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1
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Transform Bedgraph counts into Gene Counts (DESeq2 input)
bedgraph gene counts counts written 2.0 years ago by LuisNagano • 80 • updated 2.0 years ago by gocougs • 20
2
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0
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687
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0
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Is Gene's counts done correctly?
counts rna-seq written 2.2 years ago by Nick • 0
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