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0
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1
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71
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1
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question about the equation of counts in STAR ReadsPerGene.out.tab
readspergene.out.tab star written 5 days ago by boymin2020 • 20 • updated 22 hours ago by h.mon ♦ 28k
3
votes
2
answers
1.3k
views
6 follow
2
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Allele Specific Expression Analysis
x chromosome snp star rna-seq allele specific written 14 months ago by Susmita Mandal • 60 • updated 3 days ago by ta_awwad • 230
3
votes
1
answer
192
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6 follow
1
answer
Fusion detection tool error (STAR-fusion, STAR-SEQR,arriba)
ctat fusion detection star arriba rna-seq written 5 weeks ago by lucas.caue.jacintho • 30 • updated 8 days ago by Baoxu • 0
2
votes
1
answer
81
views
1
answer
How to get transcripts counts from STAR
deseq2 star rna-seq written 22 days ago by Triple Nipple • 0 • updated 22 days ago by h.mon ♦ 28k
2
votes
1
answer
92
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1
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Build repeat genome index using STAR
repeat star index written 24 days ago by yancychy • 10
0
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1
answer
115
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1
answer
hg38 premade index for STAR Aligner
alignment star rna-seq written 5 weeks ago by kratnasiri • 0 • updated 5 weeks ago by finswimmer ♦ 13k
9
votes
1
answer
223
views
6 follow
1
answer
Running STAR with --twopassMode Basic
star rna-seq ulimit written 6 weeks ago by lucas.caue.jacintho • 30 • updated 5 weeks ago by caggtaagtat • 900
1
vote
0
answers
96
views
0
answers
STAR mapping statistics don't add up with samtools count
read count pe samtools star se written 6 weeks ago by Zee_S • 50 • updated 6 weeks ago by lieven.sterck ♦ 6.4k
0
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0
answers
117
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0
answers
what does the alignment statistics of your RNA spike-in tell you about your sample of interest in two experimental conditions?
spike-in rna-seq normalization star written 7 weeks ago by Zee_S • 50
1
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0
answers
194
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0
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How splice-aware aligner (RNA-Seq) deal with long gap (intron) penalty
hisat tophat alignment star rna-seq written 12 weeks ago by CY • 460 • updated 8 weeks ago by Biostar ♦♦ 20
7
votes
1
answer
219
views
7 follow
1
answer
STAR aligner maps 0 reads to multiple loci, but 3.7% to too many loci - meaning?
star rna-seq mapping written 9 weeks ago by Anand Rao • 250 • updated 8 weeks ago by h.mon ♦ 28k
5
votes
2
answers
812
views
2
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Non-ascii characters in bam file cause htseq-count error
htseq-count star rna-seq written 9 weeks ago by loui_ • 0 • updated 9 weeks ago by swbarnes2 ♦ 7.0k
1
vote
1
answer
232
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1
answer
problem with missing input file in snakemake rule
snakemake rule star mapping written 9 weeks ago by Assa Yeroslaviz • 1.2k
4
votes
1
answer
141
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1
answer
snakemake errors and threads
threads snakemake align star written 9 weeks ago by Assa Yeroslaviz • 1.2k
2
votes
1
answer
242
views
1
answer
Difference between read counts STAR vs featureCounts
featurecounts star rna-seq multimapped written 10 weeks ago by sg197 • 10 • updated 10 weeks ago by h.mon ♦ 28k
1
vote
1
answer
260
views
1
answer
STAR: Is it ok to align with an index created from genecode but count features from gtf from ensembl?
alignment star rna-seq written 10 weeks ago by simplitia • 30 • updated 10 weeks ago by kristoffer.vittingseerup • 2.9k
4
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1
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2.2k
views
1
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Is it possible to find a human genome STAR index to not have to create it on my laptop?
human genome star mapping rna-seq star idex written 23 months ago by Pin.Bioinf • 260 • updated 10 weeks ago by Biostar ♦♦ 20
1
vote
1
answer
187
views
1
answer
Genome vs transcriptome alignement in STAR
star rna-seq written 11 weeks ago by roy.granit • 810 • updated 11 weeks ago by grant.hovhannisyan • 1.8k
2
votes
2
answers
301
views
2
answers
How I deal with raw read counts of RNA-seq
deseq2 star rna-seq written 3 months ago by A • 3.6k • updated 3 months ago by swbarnes2 ♦ 7.0k
4
votes
0
answers
4.5k
views
0
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STAR - genome indexes generation, genome file not created
star rna-seq written 3.1 years ago by lu.ne • 70 • updated 3 months ago by Biostar ♦♦ 20
16
votes
4
answers
345
views
7 follow
4
answers
How I deal with different lanes in RNA-seq alignment
alignment star rna-seq written 3 months ago by A • 3.6k • updated 3 months ago by leaodel • 110
2
votes
2
answers
307
views
2
answers
featureCounts error with 150bp Paired end RNA seq data
ngs featurecounts paired-end rna-seq star written 4 months ago by ankuresearch • 10 • updated 3 months ago by swbarnes2 ♦ 7.0k
0
votes
0
answers
211
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0
answers
trimming A tails: clip3pAdapterSeq in star vs cutadapt
star rna-seq written 3 months ago by wiscoyogi • 0
1
vote
1
answer
154
views
1
answer
When (not to) pre-build a STAR index
genome-index star written 4 months ago by jhanks1981 • 10 • updated 4 months ago by Thibault D. • 680
3
votes
1
answer
219
views
1
answer
BAM File size increased after extracting unique reads
alignment samtools star bam uniuque mapping written 4 months ago by ilovesuperheroes1993 • 0 • updated 4 months ago by michael.ante • 3.5k
1
vote
1
answer
296
views
1
answer
How to access STAR index loaded into shared memory
alignment star rna-seq written 5 months ago by paulranum11 • 40 • updated 4 months ago by Artem Kiselev • 20
5
votes
2
answers
321
views
5 follow
2
answers
>99% unmapped reads
star rna-seq written 5 months ago by RPuni • 0 • updated 5 months ago by swbarnes2 ♦ 7.0k
11
votes
4
answers
582
views
6 follow
4
answers
Dealing with 1000's of demultiplexed fastq files
zumis star umi-tools written 8 months ago by volvicpellegrino • 0 • updated 5 months ago by Lior Pachter • 460
13
votes
2
answers
298
views
2
answers
What are the best set of options to use while aligning using STAR?
ngs alignment star rna-seq written 6 months ago by gprashant17 • 70 • updated 5 months ago by Charles Warden ♦ 7.5k
0
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1
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2.1k
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1
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How Splice Junction database(SJ.out.tab) is generated from GTF(ENSEMBL) and Reference Genome (GRCh38) using STAR Aligner during Genome indexing
gtf hisat star splice junction assembly written 2.3 years ago by inambioinfo • 100 • updated 6 months ago by yywang113 • 10
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