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FPKM values from SE vs. PE RNA-Seq libraries
gene fpkm differential-expression rna-seq written 3 days ago by s.herrera706 • 0
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1
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115
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1
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How to perform FPKM on raw reads in R
R fpkm rna-seq sequencing written 6 days ago by manish20072013 • 0 • updated 6 days ago by Istvan Albert ♦♦ 71k
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stringtie (.gtf) vs ballgown (t_data.ctab) FPKM values do not match - why?
stringtie ballgown fpkm rna-seq written 8 days ago by cpak1981 • 20
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7 follow
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Bowtie2/HISAT using single-end to generate FPKM???
bowtie2 fpkm hisat rna-seq rpkm written 4 weeks ago by jamieson.pierce • 10 • updated 4 weeks ago by Brian Bushnell ♦ 12k
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156
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Calculating FPKM values from HT-counts
rpkm fpkm rna-seq written 6 weeks ago by rbronste • 110 • updated 6 weeks ago by Devon Ryan ♦ 68k
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230
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Converting TPM to FPKM
fpkm tpm rna-seq written 7 weeks ago by alexahes • 10 • updated 7 weeks ago by karl.stamm ♦ 3.1k
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215
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5 follow
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Detecting isoforms in raw counts (or FPKM) after htseq-count
htseq-count fpkm rna-seq alternative splicing written 3 months ago by Fill • 70
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194
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How to turn a FPKM table in a matrix that can be analyzed in R?
R fpkm deseq rna-seq matrix written 3 months ago by JimiOli • 0 • updated 3 months ago by Carlo Yague • 3.0k
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297
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Is log-transformation needed to calculate Euclidean distance metric from FPKM/TPM?
distance metric tpm fpkm clustering rna-seq written 3 months ago by MMa • 180 • updated 3 months ago by Petr Ponomarenko • 2.4k
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349
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How to plot PCA with fpkm values
pca plot rnaseq fpkm written 4 months ago by raya.girish • 20 • updated 4 months ago by igor • 4.3k
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178
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What does 'frac' mean in cufflinks output transcripts.gtf
fpkm cufflinkts frac written 4 months ago by Jackie • 40
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333
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heatmap using FPKM values
fpkm rna-seq written 4 months ago by ashish • 100
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8 follow
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Calculating FPKM after htseq-count
htseq fpkm rna-seq written 4 months ago by Fill • 70
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296
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Fragments Per Kilobase of transcript per Million mapped reads
fpkm cufflink written 4 months ago by sanathoi • 10
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369
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Differential expression on Combat-adjusted FPKM
fpkm combat rna-seq differential expression written 7 months ago by mare116 • 0
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387
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How do I find an example of how to calculate FPKM with cufflinks?
fpkm cufflinks written 7 months ago by blur • 50 • updated 7 months ago by vchris_ngs • 3.5k
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465
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TMM.normalized.FPKM vs .TMM.EXPR.matrix for populating SQL
trinity fpkm tpm sql edger written 8 months ago by ando.kelli • 30
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1
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Tissue Specificity index (tau) should FPKM data be log transformed?
tau fpkm rna-seq written 10 months ago by microfuge • 470 • updated 9 months ago by kennethcondon2007 • 800
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cuffdiff "value_1" & "value_2", are they mean FPKM values from replicates for each condition?
fpkm cuffdiff rna-seq written 9 months ago by vivekananthrp • 0 • updated 9 months ago by Devon Ryan ♦ 68k
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20 follow
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How To Calculate Fpkm (Fragments Per Kilobase Of Exon Per Million Fragments Mapped)
rpkm fpkm rna written 6.3 years ago by User 5402 • 210 • updated 9 months ago by jokipokemon0001 • 0
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PCA tpm fpkm
pca fpkm tpm written 9 months ago by riccardo • 40 • updated 9 months ago by Ar • 690
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384
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Calculating FPKM of reads that overlap regions of interest
bedtools fpkm chip-seq written 10 months ago by AB • 60
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420
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Top 20% expressed orthologus genes in two species
rpkm fpkm rna-seq written 12 months ago by Saad Khan • 310 • updated 10 months ago by Biostar ♦♦ 20
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Please help me with the issue on FPKM value calculation and validation of transcriptome assembly
fpkm assembly validation qrt-pcr written 13 months ago by seta • 890 • updated 11 months ago by Biostar ♦♦ 20
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7 follow
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FPKM not suitable for DE?
normalization fpkm rna-seq written 3.0 years ago by nevev • 90 • updated 12 months ago by Biostar ♦♦ 20
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802
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Length of transcripts of mm9
biomart fpkm rna-seq written 12 months ago by qwzhang0601 • 40 • updated 12 months ago by EagleEye • 4.1k
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459
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problem with using gtf file in cufflinks in Galaxy
gtf fpkm cufflinks rna-seq written 13 months ago by nazaninhoseinkhan • 180 • updated 13 months ago by WouterDeCoster ♦ 19k
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13 follow
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FPKM vs raw counts vs RPKM
rpkm fpkm rna-seq raw counts written 2.5 years ago by NHEJ • 240 • updated 13 months ago by Daniel • 3.4k
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FPKM cutoff based on data from one treatment?
fpkm rna-seq written 14 months ago by miumiul33 • 10 • updated 14 months ago by vchris_ngs • 3.5k
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cuffdiff notest but cufflinks shows fpkm > 10
notest fpkm cufflinks cuffdiff written 14 months ago by urmi208 • 30
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