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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 2.2 years ago by ▴ 150 • written 2.9 years ago by ▴ 60
1
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0
replies
1.5k
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Comment: Comment: How to manually trim FASTA file sequences and store it in a new FASTA file?
2.8 years ago by pubsurfted ▴ 60
2
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2
replies
1.5k
views
How to manually trim FASTA file sequences and store it in a new FASTA file?
FASTA
2.8 years ago by pubsurfted ▴ 60
0
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1
reply
2.8k
views
Comment: Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
2.8 years ago by pubsurfted ▴ 60
0
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1
reply
2.8k
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Comment: Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
2.8 years ago by pubsurfted ▴ 60
0
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1
reply
2.8k
views
Comment: Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
2.8 years ago by pubsurfted ▴ 60
0
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1
reply
2.8k
views
Comment: Comment: Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
2.8 years ago by pubsurfted ▴ 60
4
votes
9
replies
2.8k
views
Rseqc infer_experiment.py: 0 usable reads sampled and unknown data type
rseqc infer_experiment.py RNA-seq
updated 16 months ago by ▴ 100 • written 2.8 years ago by ▴ 60
9
votes
7
replies
4.0k
views
Building index with kallisto, keeps getting killed.
kallisto
updated 2.9 years ago by 56k • written 2.9 years ago by ▴ 60
0
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0
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4.0k
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Comment: Comment: Building index with kallisto, keeps getting killed.
2.9 years ago by pubsurfted ▴ 60
0
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1
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4.0k
views
Comment: Comment: Building index with kallisto, keeps getting killed.
2.9 years ago by pubsurfted ▴ 60
0
votes
0
replies
5.1k
views
Comment: Comment: How to find rna strand direction before alignment?
2.9 years ago by pubsurfted ▴ 60
0
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1
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5.1k
views
Comment: Comment: How to find rna strand direction before alignment?
2.9 years ago by pubsurfted ▴ 60
0
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2
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5.1k
views
Comment: Comment: How to find rna strand direction before alignment?
2.9 years ago by pubsurfted ▴ 60
17
votes
18
replies
5.1k
views
6 follow
How to find rna strand direction before alignment?
RNA-Seq
updated 2.9 years ago by 9.3k • written 2.9 years ago by ▴ 60
3
votes
2
replies
1.4k
views
Does anyone have experience using findtail?
Poly-A-tail
updated 2.9 years ago by 45k • written 2.9 years ago by ▴ 60
2
votes
1
reply
877
views
Understanding how-are-we-stranded-here and salmon parameters
RNA-Seq
updated 2.9 years ago by 154k • written 2.9 years ago by ▴ 60
1
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0
replies
5.1k
views
Comment: Comment: How to find rna strand direction before alignment?
2.9 years ago by pubsurfted ▴ 60
6
votes
5
replies
3.5k
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 2.9 years ago by 22k • written 2.9 years ago by ▴ 60
1
vote
1
reply
988
views
PolyA Tail Detection in RNA-seq data
RNA-seq PolyA
updated 2.4 years ago by 45k • written 2.9 years ago by ▴ 60
6
votes
4
replies
1.3k
views
Tools for strand direction detection RNA-Seq
Rna-seq strandedness
updated 2.9 years ago by 6.2k • written 2.9 years ago by ▴ 60
2
votes
1
reply
882
views
Is it okay to use dna.toplevel file for alignment if primary assembly file is not available?
rnaseq index aligment ensembl hisat2
updated 3.0 years ago by 154k • written 3.0 years ago by ▴ 60
0
votes
0
replies
524
views
Database for Poly A tail length of different species
database Poly-A-tail
updated 2.9 years ago by 45k • written 3.0 years ago by ▴ 60
0
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0
replies
2.6k
views
Comment: Comment: Equivalent commands on different trimming tools for comparison
3.0 years ago by pubsurfted ▴ 60
2
votes
5
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2.6k
views
Equivalent commands on different trimming tools for comparison
comparison python trimming output
3.0 years ago by pubsurfted ▴ 60
0
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0
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2.6k
views
Comment: Comment: Equivalent commands on different trimming tools for comparison
3.0 years ago by pubsurfted ▴ 60
2
votes
0
replies
4.0k
views
Comment: Comment: How to create a basic GUI for rna seq pipeline
3.0 years ago by pubsurfted ▴ 60
0
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1
reply
2.6k
views
Comment: Comment: Equivalent commands on different trimming tools for comparison
3.0 years ago by pubsurfted ▴ 60
0
votes
1
reply
645
views
3' end base accuracy
fastq Trimming reads
updated 3.0 years ago by 154k • written 3.0 years ago by ▴ 60
18
votes
9
replies
4.0k
views
7 follow
How to create a basic GUI for rna seq pipeline
Nextflow RNASeq GUI Pipeline
updated 2.2 years ago by ▴ 610 • written 3.0 years ago by ▴ 60
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