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3
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1
answer
185
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1
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HISAT2 alignment problem
rna-seq hisat2 written 29 days ago by kwanghoon • 0 • updated 5 days ago by geneticatt • 0
2
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2
answers
4.9k
views
2
answers
HISAT2 indexes, GRCm38 or mm10?
hisat2 rna-seq index written 2.5 years ago by Buffo • 1.8k • updated 15 days ago by iraia.munoa • 90
2
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1
answer
102
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1
answer
Alignment with multiple reference genome using HISAT2
assembly next-gen rna-seq alignment hisat2 written 20 days ago by spriyansh29 • 30
0
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0
answers
95
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0
answers
Query about memory size usage of Hisat2
hisat2 rna-seq silkworm written 21 days ago by boymin2020 • 20
3
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1
answer
125
views
1
answer
How to convert .tar file to fasta file?
fasta rna-seq hisat2 written 25 days ago by jabbari.parnian • 0
1
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1
answer
117
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1
answer
Infer strandedness of my single-end RNA-Seq data
strandedness rna-seq hisat2 written 27 days ago by DataFanatic • 200 • updated 27 days ago by kristoffer.vittingseerup • 3.2k
0
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0
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68
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0
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hisat2 error: Symbol not found ... libstdc++.6.dylib
libstdc dylib tool rna-seq hisat2 written 29 days ago by axolootle • 0 • updated 29 days ago by lakhujanivijay ♦ 5.0k
3
votes
1
answer
126
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1
answer
Could not locate a HISAT2 index corresponding to basename. Error: Encountered internal HISAT2 exception (#1)
assembly forum alignment rna-seq hisat2 written 4 weeks ago by Hannah Dixon • 0 • updated 4 weeks ago by ATpoint ♦ 34k
6
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1
answer
228
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1
answer
Low mapping rate with splice aware aligners (kallisto, HISAT2) but not bowtie2
bowtie2 kallisto rna-seq hisat2 written 6 weeks ago by a.palmer • 20
1
vote
1
answer
131
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1
answer
Snakemake - Missing MissingInputException in line 20: Missing input files for rule stringt:
snakefile stringtie snakemake rna-seq hisat2 written 8 weeks ago by shivani.avera • 0 • updated 8 weeks ago by Asaf ♦ 7.6k
1
vote
1
answer
141
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1
answer
Do I have to use index with trans information for RNA-seq alignment by Hisat2?
rna-seq hisat2 written 9 weeks ago by ben.kunfang • 10 • updated 9 weeks ago by Istvan Albert ♦♦ 84k
1
vote
1
answer
142
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1
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All sequenced reads in piared end sequencing don't have mate pairs?
paired end sequencing hisat2 written 11 weeks ago by piyushjo • 470 • updated 11 weeks ago by h.mon ♦ 29k
0
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0
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138
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0
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Difference between HISAT2 grch38 and grch38_snp indexes
variant calling exome alignment snp hisat2 written 11 weeks ago by ScubaChris • 10
0
votes
1
answer
261
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1
answer
HiSAT2 edit distance option
rna-seq hisat2 written 12 months ago by gokberk • 60 • updated 3 months ago by ynau_kanghuadu • 0
1
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0
answers
382
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0
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Does StringTie need strand information if HISAT2 was run with strand-specific information
stringtie hisat2 written 10 months ago by piyushjo • 470 • updated 3 months ago by humeira.tayyab • 10
6
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1
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1.7k
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6 follow
1
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HISAT2 Indexing using annotation for Rattus_norvegicus
hisat2 annotation alignment ensembl index written 19 months ago by neranjan • 40 • updated 3 months ago by robin.mesnage • 0
3
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1
answer
203
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1
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getting 0 counts using hisat2 and feature_count pipeline
count featurecounts rna-seq hisat2 written 4 months ago by bioyas • 0 • updated 4 months ago by swbarnes2 ♦ 7.8k
2
votes
1
answer
312
views
1
answer
What is MSTRG?
stringtie mstrg ballgown rna-seq hisat2 written 4 months ago by arabi • 10
1
vote
1
answer
293
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1
answer
Mouse Strains in mm10/GRCm38 dbSNP 142?
mm10 hisat2 dbsnp mouse written 4 months ago by QVINTVS_FABIVS_MAXIMVS • 2.4k • updated 4 months ago by igor ♦ 10k
1
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1
answer
529
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1
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HISAT2 Error: Encountered internal HISAT2 exception (#1)
hisat2 written 4 months ago by ja4123 • 0
0
votes
0
answers
168
views
0
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Hisat2 --sra-acc option (redirect sra file to a desired directory)
ncbi sra hisat2 written 5 months ago by Darill • 40
3
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2
answers
245
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2
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Set the max coverage wanted with Hisat2 ?
mapping hisat2 written 5 months ago by Darill • 40
0
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0
answers
169
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0
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RNAseq read mapping statistics from sam file
hisat2 rna-seq bash written 5 months ago by Bioinfonext • 220
1
vote
1
answer
301
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1
answer
HISAT2 Error Building Index
rna-seq hisat2 written 6 months ago by adam.faranda • 80
4
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1
answer
457
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1
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Hisat2 index mm10 download
rna-seq hisat2 written 8 months ago by Michel Edwar • 70
0
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0
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260
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0
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What is the differences in index building by hisat with or without exon, splicing variant files?
lncrna rna-seq hisat2 written 8 months ago by mathavanbioinfo • 50
0
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0
answers
207
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0
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Novel lncRNA identification and quantification RNA seq?
sequencing assembly lncrna rna-seq hisat2 written 8 months ago by mathavanbioinfo • 50
1
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0
answers
499
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0
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HISAT2 index building
hisat2 written 8 months ago by nienke.besbrugge • 0
1
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2
answers
254
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2
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dUTP sequencing -- different strand-ratios for different samples
dutp rna-seq hisat2 written 8 months ago by mschmid • 150 • updated 8 months ago by Charles Warden ♦ 7.7k
0
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0
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225
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0
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Hisat2 index builder seems to be running indefinitly
rna-seq hisat2 written 9 months ago by caranlove • 10 • updated 9 months ago by ATpoint ♦ 34k
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