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1.7k
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Does GNOMAD use all LOFTEE LoF filters?
loftee gnomad LOF ensembl vep
updated 4 months ago by • 0 • written 4.2 years ago by ▴ 50
0
votes
1
reply
1.5k
views
LiftoverVcf no output
Assembly genome liftover sequencing picard
updated 3.4 years ago by 20 • written 3.9 years ago by ▴ 50
3
votes
4
replies
2.5k
views
GATK liftOver chain file for human_g1k_v37.fasta
gatk genome sequencing alignment
updated 3.7 years ago by 20 • written 3.9 years ago by ▴ 50
1
vote
1
reply
942
views
Understanding BEDtools summary output
bedtools bed summary man
3.8 years ago by brismiller ▴ 50
0
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0
replies
1.7k
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Comment: C: chromosome length .size file
3.8 years ago by brismiller ▴ 50
1
vote
2
replies
1.7k
views
chromosome length .size file
chromosome genome
updated 13 months ago by 43k • written 3.8 years ago by ▴ 50
1
vote
1
reply
2.5k
views
Comment: C: GATK liftOver chain file for human_g1k_v37.fasta
3.8 years ago by brismiller ▴ 50
0
votes
0
replies
1.0k
views
ANNOVAR issue annotating vcf
annover variant gnomad
3.8 years ago by brismiller ▴ 50
0
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1
reply
3.5k
views
Comment: C: unplaced, unlocalized, ... scaffolds from hg19 to GRCh38
3.9 years ago by brismiller ▴ 50
1
vote
1
reply
2.5k
views
Comment: C: GATK liftOver chain file for human_g1k_v37.fasta
3.9 years ago by brismiller ▴ 50
0
votes
2
replies
27k
views
Comment: C: replace fasta headers with another name in a text file
3.9 years ago by brismiller ▴ 50
1
vote
2
replies
737
views
bam file: get date that alignment was run
RNA-Seq alignment sequencing
4.1 years ago by brismiller ▴ 50
0
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0
replies
3.7k
views
Comment: C: Protein coding transcripts with vep
4.1 years ago by brismiller ▴ 50
2
votes
1
reply
847
views
LOFTEE citation/ publication
ensembl gnomad loftee citation
updated 4.1 years ago by 87k • written 4.1 years ago by ▴ 50
0
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0
replies
1.7k
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Comment: C: Does GNOMAD use all LOFTEE LoF filters?
4.1 years ago by brismiller ▴ 50
1
vote
0
replies
1.8k
views
Comment: C: VEP GUI not returning LOFTEE output?
4.2 years ago by brismiller ▴ 50
5
votes
2
replies
1.8k
views
VEP GUI not returning LOFTEE output?
vep ensembl loftee
updated 4.2 years ago by ★ 2.4k • written 4.2 years ago by ▴ 50
0
votes
0
replies
1.6k
views
Comment: C: GNOMAD exome vcf field missing? number of hemizygous individuals
4.2 years ago by brismiller ▴ 50
2
votes
2
replies
1.6k
views
GNOMAD exome vcf field missing? number of hemizygous individuals
gnomad exome hemizygous
updated 4.2 years ago by ★ 1.8k • written 4.2 years ago by ▴ 50
0
votes
0
replies
965
views
Comment: C: geneontology.org GO annotations no longer present
5.4 years ago by brismiller ▴ 50
3
votes
3
replies
965
views
geneontology.org GO annotations no longer present
RNA-Seq genome next-gen sequencing
updated 5.4 years ago by 8.3k • written 5.4 years ago by ▴ 50
0
votes
0
replies
1.3k
views
Comment: C: Bowtie2: trying to implement position specific scoring options?
5.6 years ago by brismiller ▴ 50
1
vote
2
replies
1.3k
views
Bowtie2: trying to implement position specific scoring options?
bowtie2 bowtie alignment score sRNA
5.6 years ago by brismiller ▴ 50
0
votes
1
reply
1.2k
views
GOstats Clarification: ontology information source
RNA-Seq database ontology GOstats GO
updated 5.7 years ago by ★ 1.5k • written 5.7 years ago by ▴ 50
0
votes
4
replies
1.9k
views
GO Analysis Clarification using GOstats using hyperGTest()
RNA-Seq GO Gene ontology
updated 5.8 years ago by 7.5k • written 5.8 years ago by ▴ 50
0
votes
1
reply
1.9k
views
Comment: C: GO Analysis Clarification using GOstats using hyperGTest()
5.8 years ago by brismiller ▴ 50
0
votes
2
replies
2.2k
views
Decreased base quality at start of RNA seq reads
RNA-Seq quality base sequencing position
updated 5.9 years ago by ▴ 240 • written 5.9 years ago by ▴ 50
2
votes
1
reply
2.4k
views
Clarification on how DSEeq2 Dispersion Curve is Generated
RNA-Seq Deseq2 dispersion gene correction
updated 6.0 years ago by 87k • written 6.0 years ago by ▴ 50
3
votes
1
reply
2.7k
views
RNAseq sva-seq drops number of DE genes?
RNA-Seq SVA svaseq R
updated 6.0 years ago by 87k • written 6.0 years ago by ▴ 50
0
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0
replies
1.6k
views
Comment: C: Alignment and Counting strandedness redundancy?
6.1 years ago by brismiller ▴ 50
2
votes
2
replies
1.6k
views
Alignment and Counting strandedness redundancy?
RNA-Seq strand featurecounts hisat2 alignment
updated 6.1 years ago by 35k • written 6.1 years ago by ▴ 50
1
vote
5
replies
1.5k
views
Program for updating custom annotations with new genome?
assembly next-gen RNA-Seq update annotations
6.1 years ago by brismiller ▴ 50
0
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0
replies
1.5k
views
Comment: C: Program for updating custom annotations with new genome?
6.1 years ago by brismiller ▴ 50
1
vote
0
replies
1.5k
views
Answer: A: Program for updating custom annotations with new genome?
6.1 years ago by brismiller ▴ 50
0
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0
replies
1.5k
views
Comment: C: Program for updating custom annotations with new genome?
6.1 years ago by brismiller ▴ 50
0
votes
1
reply
2.8k
views
Comment: C: fastq parsing inefficiencies with python
6.2 years ago by brismiller ▴ 50
14
votes
15
replies
2.8k
views
fastq parsing inefficiencies with python
python RNA-Seq
updated 13 months ago by 43k • written 6.2 years ago by ▴ 50
0
votes
1
reply
1.7k
views
Salmon TPMs not the same for each strand individually (--libType IU)?
RNA-Seq genome sequencing next-gen
updated 6.6 years ago by 6.5k • written 6.6 years ago by ▴ 50
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