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66
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9
answers
5.0k
views
30 follow
9
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Forum: Stranger Things: unexpected limitations of popular tools
forum samtools errors hisat2 written 3.2 years ago by Istvan Albert ♦♦ 84k • updated 2.9 years ago by Charles Plessy2.7k
2
votes
3
answers
5.3k
views
5 follow
3
answers
Mapping onto the Transcriptome, RNA-seq
transcriptome rna-seq bowtie hisat2 written 3.2 years ago by asyndeton1740 • updated 3.2 years ago by Rob4.2k
6
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2
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6.4k
views
2
answers
0
votes
2
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1.9k
views
2
answers
3
votes
2
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3.2k
views
2
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How to resync paired-end data?
de novo bowtie2 paired-end transcriptome hisat2 written 4.0 years ago by germelcar20 • updated 4.0 years ago by Charles Plessy2.7k
14
votes
2
answers
7.0k
views
15 follow
2
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Run mutltiple Fastq files on Hisat2
rnaseq hisat hisat2 written 3.8 years ago by V230 • updated 3.8 years ago by Jorge Amigo12k
5
votes
2
answers
6.8k
views
2
answers
How to build Hisat2 index for human genome (GRCh37 )?
rna-seq hisat2 written 3.4 years ago by Vasu450 • updated 3.4 years ago by h.mon31k
6
votes
2
answers
2.5k
views
5 follow
2
answers
Mapping RNA-Seq data on genome from another species
genome hisat2 star rna-seq mapping written 3.4 years ago by tlorin270 • updated 3.4 years ago by Brian Bushnell17k
8
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2
answers
3.6k
views
7 follow
2
answers
2
votes
2
answers
6.1k
views
6 follow
2
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Could not locate a HISAT2 index to basename
rna-seq hisat2 written 3.3 years ago by oolongoni10 • updated 17 months ago by zhiminfdu0
11
votes
2
answers
6.4k
views
9 follow
2
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HISAT2 rna-strandness option
rna-seq hisat2 written 3.2 years ago by cpak1981110 • updated 3.2 years ago by Antonio R. Franco4.5k
25
votes
2
answers
2.6k
views
10 follow
2
answers
6
votes
2
answers
1.6k
views
2
answers
RNA-seq read alignment
tophat hisat2 written 2.9 years ago by amy1640
5
votes
2
answers
1.8k
views
2
answers
HISAT2 index creation
hisat2 rna-seq splice site index written 2.8 years ago by devbt1510
2
votes
2
answers
5.5k
views
2
answers
HISAT2 indexes, GRCm38 or mm10?
hisat2 rna-seq index written 2.8 years ago by Buffo1.8k • updated 4 months ago by iraia.munoa100
5
votes
2
answers
2.0k
views
2
answers
Hisat2 multiple paired end reads
allignment rna-seq hisat2 written 2.7 years ago by sicat.paolo2030 • updated 2.7 years ago by lakhujanivijay5.2k
15
votes
2
answers
4.8k
views
9 follow
2
answers
Which strand specific option need to be used with HISAT2?
hisat2 rna-seq strandspecific written 2.6 years ago by Vasu450 • updated 2.6 years ago by JJ520
2
votes
2
answers
1.2k
views
5 follow
2
answers
1
vote
2
answers
4.5k
views
2
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Computer requirements for RNAseq alignment
rnaseq computer alignment hisat2 written 2.5 years ago by n.lu40 • updated 2.5 years ago by genomax89k
14
votes
2
answers
4.2k
views
8 follow
2
answers
Evaluation of HISAT2 Alignment Result
alignment rna-seq hisat2 written 2.4 years ago by modarzi130 • updated 2.4 years ago by lakhujanivijay5.2k
2
votes
2
answers
713
views
5 follow
2
answers
Proper design for DESeq2 and other RNAseq general questions
stringtie deseq2 rna-seq hisat2 written 2.0 years ago by Stef0 • updated 2.0 years ago by swbarnes28.6k
3
votes
2
answers
1.1k
views
2
answers
how to extract counts from bam/merge-bam without gtf
R samtools bowtie2 rna-seq hisat2 written 22 months ago by Shahzad10 • updated 22 months ago by michael.ante3.6k
4
votes
2
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1.0k
views
2
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0
votes
2
answers
545
views
5 follow
2
answers
Directional Strand related settings for RNA-seq Analysis Software
htseq tophat rna-seq smartseq hisat2 written 17 months ago by BM60 • updated 17 months ago by Juke344.6k
1
vote
2
answers
305
views
2
answers
dUTP sequencing -- different strand-ratios for different samples
dutp rna-seq hisat2 written 12 months ago by mschmid150 • updated 12 months ago by Charles Warden7.9k
3
votes
2
answers
342
views
2
answers
3
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2
answers
182
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2
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1
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1
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2.2k
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1
answer
3
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1
answer
2.3k
views
1
answer
3
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1
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2.1k
views
1
answer
Cuffquant errors after using HISAT2
hisat cufflinks cuffquant rna-seq hisat2 written 4.3 years ago by ilikebing200050 • updated 4.3 years ago by ablanchetcohen1.2k
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