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Where to get a reference gene model in bed fomat? Is the only option converting it from gtf to bed?
RNA-seq
updated 19 months ago by ▴ 140 • written 2.3 years ago by ▴ 40
1
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0
replies
1.3k
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Comment: Comment: How to manually trim FASTA file sequences and store it in a new FASTA file?
2.2 years ago by pubsurfted ▴ 40
2
votes
2
replies
1.3k
views
How to manually trim FASTA file sequences and store it in a new FASTA file?
FASTA
2.2 years ago by pubsurfted ▴ 40
0
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1
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2.3k
views
Comment: Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
2.2 years ago by pubsurfted ▴ 40
0
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1
reply
2.3k
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Comment: Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
2.3 years ago by pubsurfted ▴ 40
0
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1
reply
2.3k
views
Comment: Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
2.3 years ago by pubsurfted ▴ 40
0
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1
reply
2.3k
views
Comment: Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
2.3 years ago by pubsurfted ▴ 40
3
votes
9
replies
2.3k
views
Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
rseqc infer_experiment.py RNA-seq
updated 9 months ago by ▴ 100 • written 2.3 years ago by ▴ 40
9
votes
7
replies
3.3k
views
Building index with kallisto, keeps getting killed.
kallisto
updated 2.3 years ago by 55k • written 2.3 years ago by ▴ 40
0
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0
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3.3k
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Comment: Comment: Building index with kallisto, keeps getting killed.
2.3 years ago by pubsurfted ▴ 40
0
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1
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3.3k
views
Comment: Comment: Building index with kallisto, keeps getting killed.
2.3 years ago by pubsurfted ▴ 40
0
votes
0
replies
3.9k
views
Comment: Comment: How to find rna strand direction before alignment?
2.3 years ago by pubsurfted ▴ 40
0
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1
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3.9k
views
Comment: Comment: How to find rna strand direction before alignment?
2.3 years ago by pubsurfted ▴ 40
0
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2
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3.9k
views
Comment: Comment: How to find rna strand direction before alignment?
2.3 years ago by pubsurfted ▴ 40
13
votes
18
replies
3.9k
views
6 follow
How to find rna strand direction before alignment?
RNA-Seq
updated 2.3 years ago by 9.2k • written 2.3 years ago by ▴ 40
3
votes
2
replies
1.1k
views
Does anyone have experience using findtail?
Poly-A-tail
updated 2.3 years ago by 45k • written 2.3 years ago by ▴ 40
2
votes
1
reply
689
views
Understanding how-are-we-stranded-here and salmon parameters
RNA-Seq
updated 2.3 years ago by 150k • written 2.3 years ago by ▴ 40
1
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0
replies
3.9k
views
Comment: Comment: How to find rna strand direction before alignment?
2.3 years ago by pubsurfted ▴ 40
6
votes
5
replies
3.0k
views
6 follow
When is it advantageous to use a non-splice aware aligner like BowTie2 over a splice aware one like Hisat2?
illumina Rna-seq paired short-reads
updated 2.3 years ago by 21k • written 2.3 years ago by ▴ 40
1
vote
1
reply
806
views
PolyA Tail Detection in RNA-seq data
RNA-seq PolyA
updated 22 months ago by 45k • written 2.3 years ago by ▴ 40
6
votes
4
replies
1.0k
views
Tools for strand direction detection RNA-Seq
Rna-seq strandedness
updated 2.3 years ago by 6.2k • written 2.3 years ago by ▴ 40
2
votes
1
reply
721
views
Is it okay to use dna.toplevel file for alignment if primary assembly file is not available?
rnaseq index aligment ensembl hisat2
updated 2.4 years ago by 150k • written 2.4 years ago by ▴ 40
0
votes
0
replies
463
views
Database for Poly A tail length of different species
database Poly-A-tail
updated 2.3 years ago by 45k • written 2.4 years ago by ▴ 40
0
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0
replies
2.0k
views
Comment: Comment: Equivalent commands on different trimming tools for comparison
2.4 years ago by pubsurfted ▴ 40
2
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5
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2.0k
views
Equivalent commands on different trimming tools for comparison
comparison python trimming output
2.4 years ago by pubsurfted ▴ 40
0
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0
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2.0k
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Comment: Comment: Equivalent commands on different trimming tools for comparison
2.4 years ago by pubsurfted ▴ 40
2
votes
0
replies
3.1k
views
Comment: Comment: How to create a basic GUI for rna seq pipeline
2.4 years ago by pubsurfted ▴ 40
0
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1
reply
2.0k
views
Comment: Comment: Equivalent commands on different trimming tools for comparison
2.4 years ago by pubsurfted ▴ 40
0
votes
1
reply
526
views
3' end base accuracy
fastq Trimming reads
updated 2.4 years ago by 150k • written 2.4 years ago by ▴ 40
18
votes
9
replies
3.1k
views
7 follow
How to create a basic GUI for rna seq pipeline
Nextflow RNASeq GUI Pipeline
updated 19 months ago by ▴ 600 • written 2.4 years ago by ▴ 40
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