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0
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1.2k
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LiftoverVcf no output
Assembly genome liftover sequencing picard
updated 2.3 years ago by 20 • written 2.8 years ago by ▴ 50
3
votes
4
replies
1.9k
views
GATK liftOver chain file for human_g1k_v37.fasta
gatk genome sequencing alignment
updated 2.7 years ago by 20 • written 2.8 years ago by ▴ 50
1
vote
1
reply
726
views
Understanding BEDtools summary output
bedtools bed summary man
2.7 years ago by brismiller ▴ 50
0
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0
replies
1.2k
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Comment: C: chromosome length .size file
2.7 years ago by brismiller ▴ 50
1
vote
2
replies
1.2k
views
chromosome length .size file
chromosome genome
updated 3 days ago by 38k • written 2.7 years ago by ▴ 50
1
vote
1
reply
1.9k
views
Comment: C: GATK liftOver chain file for human_g1k_v37.fasta
2.8 years ago by brismiller ▴ 50
0
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0
replies
800
views
ANNOVAR issue annotating vcf
annover variant gnomad
2.8 years ago by brismiller ▴ 50
0
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1
reply
3.1k
views
Comment: C: unplaced, unlocalized, ... scaffolds from hg19 to GRCh38
2.8 years ago by brismiller ▴ 50
1
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1
reply
1.9k
views
Comment: C: GATK liftOver chain file for human_g1k_v37.fasta
2.8 years ago by brismiller ▴ 50
0
votes
1
reply
25k
views
Comment: C: replace fasta headers with another name in a text file
2.8 years ago by brismiller ▴ 50
1
vote
2
replies
492
views
bam file: get date that alignment was run
RNA-Seq alignment sequencing
3.0 years ago by brismiller ▴ 50
0
votes
0
replies
3.2k
views
Comment: C: Protein coding transcripts with vep
3.0 years ago by brismiller ▴ 50
2
votes
1
reply
676
views
LOFTEE citation/ publication
ensembl gnomad loftee citation
updated 3.1 years ago by 84k • written 3.1 years ago by ▴ 50
0
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0
replies
1.2k
views
Comment: C: Does GNOMAD use all LOFTEE LoF filters?
3.1 years ago by brismiller ▴ 50
0
votes
1
reply
1.2k
views
Does GNOMAD use all LOFTEE LoF filters?
loftee gnomad LOF ensembl vep
updated 3.1 years ago by 38k • written 3.1 years ago by ▴ 50
1
vote
0
replies
1.5k
views
Comment: C: VEP GUI not returning LOFTEE output?
3.2 years ago by brismiller ▴ 50
5
votes
2
replies
1.5k
views
VEP GUI not returning LOFTEE output?
vep ensembl loftee
updated 3.2 years ago by ★ 2.2k • written 3.2 years ago by ▴ 50
0
votes
0
replies
1.1k
views
Comment: C: GNOMAD exome vcf field missing? number of hemizygous individuals
3.2 years ago by brismiller ▴ 50
2
votes
2
replies
1.1k
views
GNOMAD exome vcf field missing? number of hemizygous individuals
gnomad exome hemizygous
updated 3.2 years ago by ★ 1.8k • written 3.2 years ago by ▴ 50
0
votes
0
replies
741
views
Comment: C: geneontology.org GO annotations no longer present
4.3 years ago by brismiller ▴ 50
3
votes
3
replies
741
views
geneontology.org GO annotations no longer present
RNA-Seq genome next-gen sequencing
updated 4.3 years ago by 7.7k • written 4.3 years ago by ▴ 50
0
votes
0
replies
1.1k
views
Comment: C: Bowtie2: trying to implement position specific scoring options?
4.5 years ago by brismiller ▴ 50
1
vote
2
replies
1.1k
views
Bowtie2: trying to implement position specific scoring options?
bowtie2 bowtie alignment score sRNA
4.5 years ago by brismiller ▴ 50
0
votes
1
reply
1.0k
views
GOstats Clarification: ontology information source
RNA-Seq database ontology GOstats GO
updated 4.6 years ago by ★ 1.2k • written 4.6 years ago by ▴ 50
0
votes
4
replies
1.6k
views
GO Analysis Clarification using GOstats using hyperGTest()
RNA-Seq GO Gene ontology
updated 4.7 years ago by 7.4k • written 4.7 years ago by ▴ 50
0
votes
1
reply
1.6k
views
Comment: C: GO Analysis Clarification using GOstats using hyperGTest()
4.7 years ago by brismiller ▴ 50
0
votes
2
replies
1.7k
views
Decreased base quality at start of RNA seq reads
RNA-Seq quality base sequencing position
updated 4.8 years ago by ▴ 230 • written 4.8 years ago by ▴ 50
2
votes
1
reply
2.0k
views
Clarification on how DSEeq2 Dispersion Curve is Generated
RNA-Seq Deseq2 dispersion gene correction
updated 4.9 years ago by 84k • written 4.9 years ago by ▴ 50
3
votes
1
reply
2.4k
views
RNAseq sva-seq drops number of DE genes?
RNA-Seq SVA svaseq R
updated 4.9 years ago by 84k • written 4.9 years ago by ▴ 50
0
votes
0
replies
1.4k
views
Comment: C: Alignment and Counting strandedness redundancy?
5.0 years ago by brismiller ▴ 50
2
votes
2
replies
1.4k
views
Alignment and Counting strandedness redundancy?
RNA-Seq strand featurecounts hisat2 alignment
updated 5.0 years ago by 34k • written 5.0 years ago by ▴ 50
1
vote
5
replies
1.3k
views
Program for updating custom annotations with new genome?
assembly next-gen RNA-Seq update annotations
5.0 years ago by brismiller ▴ 50
0
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0
replies
1.3k
views
Comment: C: Program for updating custom annotations with new genome?
5.0 years ago by brismiller ▴ 50
1
vote
0
replies
1.3k
views
Answer: A: Program for updating custom annotations with new genome?
5.0 years ago by brismiller ▴ 50
0
votes
0
replies
1.3k
views
Comment: C: Program for updating custom annotations with new genome?
5.0 years ago by brismiller ▴ 50
0
votes
1
reply
2.1k
views
Comment: C: fastq parsing inefficiencies with python
5.1 years ago by brismiller ▴ 50
14
votes
15
replies
2.1k
views
fastq parsing inefficiencies with python
python RNA-Seq
updated 8 days ago by 38k • written 5.1 years ago by ▴ 50
0
votes
1
reply
1.5k
views
Salmon TPMs not the same for each strand individually (--libType IU)?
RNA-Seq genome sequencing next-gen
updated 5.6 years ago by 5.9k • written 5.6 years ago by ▴ 50
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