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1.4k
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Calculating PRS from pre-computed PGS Catalog
GWAS PRS PGS
updated 14 months ago by ▴ 440 • written 2.0 years ago by ▴ 380
0
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0
replies
510
views
Differentiate sequenced and imputed variants in BGEN files
imputation bgen ukb
23 months ago by user230613 ▴ 380
14
votes
10
replies
12k
views
fgsea after deseq2, criteria for ranking DEGs.
GSEA
updated 3.4 years ago by 89k • written 3.4 years ago by ▴ 380
0
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0
replies
12k
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Comment: Comment: fgsea after deseq2, criteria for ranking DEGs.
3.4 years ago by user230613 ▴ 380
0
votes
1
reply
12k
views
Comment: Comment: fgsea after deseq2, criteria for ranking DEGs.
3.4 years ago by user230613 ▴ 380
0
votes
1
reply
12k
views
Comment: Comment: fgsea after deseq2, criteria for ranking DEGs.
3.4 years ago by user230613 ▴ 380
0
votes
1
reply
31k
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Comment: Comment: Gene Set Enrichment Analysis
3.6 years ago by user230613 ▴ 380
0
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0
replies
1.9k
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Comment: Comment: lfcShrink MA plot comparison
3.6 years ago by user230613 ▴ 380
0
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1
reply
1.9k
views
Comment: Comment: lfcShrink MA plot comparison
3.6 years ago by user230613 ▴ 380
0
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1
reply
1.9k
views
Comment: Comment: lfcShrink MA plot comparison
3.6 years ago by user230613 ▴ 380
2
votes
6
replies
1.9k
views
lfcShrink MA plot comparison
lfcShrink deseq2
updated 3.6 years ago by ★ 2.6k • written 3.6 years ago by ▴ 380
0
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1
reply
1.8k
views
Comment: C: convert CDS coordinates of a GTF to amino acid coordinates respect the resultant
5.3 years ago by user230613 ▴ 380
1
vote
3
replies
1.8k
views
convert CDS coordinates of a GTF to amino acid coordinates respect the resultant protein
protein coordinates
5.3 years ago by user230613 ▴ 380
9
votes
9
replies
4.5k
views
Extract sequence number "X" from multifasta file
fasta
updated 3.7 years ago by 45k • written 10.9 years ago by ▴ 380
2
votes
3
replies
7.0k
views
CIRCOS plot with Chip-Seq Data
ChIP-Seq circos
updated 5.4 years ago by ★ 3.4k • written 10.2 years ago by ▴ 380
0
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1
reply
5.8k
views
Comment: C: promoter position estimation
updated 5.9 years ago by 45k • written 9.9 years ago by ▴ 380
0
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0
replies
39k
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Comment: A: Multi-Sample Vcf To Phylogenetic Tree.
updated 5.9 years ago by 45k • written 9.9 years ago by ▴ 380
22
votes
10
replies
18k
views
9 follow
Extract reads within given region, and their mates
bam samtools
updated 2.7 years ago by ▴ 20 • written 10.3 years ago by ▴ 380
4
votes
4
replies
6.1k
views
Does vcf-consensus support indels?
consensus vcf-consensus
updated 7.6 years ago by ▴ 80 • written 9.7 years ago by ▴ 380
0
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0
replies
17k
views
Comment: C: Difference between the Fasta files from UCSC and Gencode/Ensembl
7.6 years ago by user230613 ▴ 380
0
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1
reply
2.2k
views
Mate negative strand flag does not match read negative strand flag of mate
bam validatesamfile rnaseq
updated 7.8 years ago by 5.8k • written 7.8 years ago by ▴ 380
1
vote
1
reply
2.5k
views
consensus sequence of complex estructural variants
consensus estructural variant
updated 3.5 years ago by 45k • written 10.7 years ago by ▴ 380
0
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0
replies
6.6k
views
Comment: C: TPM VS FPKM VS TMM and K-mer specific expression quantification
7.9 years ago by user230613 ▴ 380
6
votes
9
replies
12k
views
6 follow
Intersect multiple bed and keep all fields
bed bedtools bedops
updated 3.0 years ago by 45k • written 10.3 years ago by ▴ 380
0
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1
reply
6.6k
views
Comment: C: TPM VS FPKM VS TMM and K-mer specific expression quantification
8.0 years ago by user230613 ▴ 380
6
votes
1
reply
4.5k
views
GATK; Variant calling RNA-Seq best practices: bam processing steps
variant-calling RNA-Seq gatk
updated 2.0 years ago by 45k • written 8.1 years ago by ▴ 380
8
votes
4
replies
6.6k
views
TPM VS FPKM VS TMM and K-mer specific expression quantification
RNA-Seq kmer
updated 8.3 years ago by 7.2k • written 8.4 years ago by ▴ 380
0
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1
reply
1.9k
views
Comment: C: Specific sequence abundance using RNA-Seq
8.4 years ago by user230613 ▴ 380
3
votes
4
replies
1.9k
views
Specific sequence abundance using RNA-Seq
expression RNA-Seq
updated 8.4 years ago by 20k • written 8.4 years ago by ▴ 380
0
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1
reply
24k
views
Comment: C: What Ngs Read Simulators Are Available For Paired-End Data?
8.4 years ago by user230613 ▴ 380
0
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1
reply
24k
views
Comment: C: What Ngs Read Simulators Are Available For Paired-End Data?
8.4 years ago by user230613 ▴ 380
0
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0
replies
2.7k
views
Comment: C: Subset of transcripts - Do I need to re-scale the TPM values?
8.4 years ago by user230613 ▴ 380
3
votes
3
replies
2.7k
views
Subset of transcripts - Do I need to re-scale the TPM values?
RNA-Seq tpm kallisto
8.4 years ago by user230613 ▴ 380
0
votes
1
reply
12k
views
Comment: C: kallisto: strand-specific and fragment length calculation
8.4 years ago by user230613 ▴ 380
7
votes
11
replies
12k
views
7 follow
kallisto: strand-specific and fragment length calculation
RNA-Seq kallisto
updated 8.5 years ago by ▴ 130 • written 8.5 years ago by ▴ 380
1
vote
3
replies
3.1k
views
bam-readcount tool: output zero coverage bases
bam-readcount
updated 8.6 years ago by 22k • written 8.6 years ago by ▴ 380
2
votes
8
replies
3.2k
views
samstat and samtools differ in the number of MAPQ=0 reads/alignments.
bwa samtools samstat
8.6 years ago by user230613 ▴ 380
0
votes
0
replies
3.1k
views
Comment: C: bam-readcount tool: output zero coverage bases
8.6 years ago by user230613 ▴ 380
0
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1
reply
3.2k
views
Comment: C: samstat and samtools differ in the number of MAPQ=0 reads/alignments.
8.6 years ago by user230613 ▴ 380
0
votes
1
reply
3.2k
views
Comment: C: samstat and samtools differ in the number of MAPQ=0 reads/alignments.
8.6 years ago by user230613 ▴ 380
0
votes
1
reply
3.2k
views
Comment: C: number of MAPQ=0 reads or alignments in BWA MEM output
8.6 years ago by user230613 ▴ 380
0
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0
replies
3.2k
views
Comment: C: samstat and samtools differ in the number of MAPQ=0 reads/alignments
8.6 years ago by user230613 ▴ 380
0
votes
1
reply
2.2k
views
Varscan2 filters AND usability of the tool - looking for opinions
varscan2 variant calling varscan somatic
8.6 years ago by user230613 ▴ 380
0
votes
1
reply
4.8k
views
Comment: C: WES reads mapping: RNASeq or DNASeq aligner?
8.7 years ago by user230613 ▴ 380
5
votes
4
replies
4.8k
views
WES reads mapping: RNASeq or DNASeq aligner?
mapping alignment wes
updated 8.7 years ago by ★ 2.8k • written 8.7 years ago by ▴ 380
7
votes
7
replies
8.3k
views
NGS data simulation: VarSim or BAMSurgeon?
simulation varsim bamsurgeon
updated 8.7 years ago by ★ 3.0k • written 8.7 years ago by ▴ 380
0
votes
0
replies
5.2k
views
Comment: C: SomaticSniper VS Varscan2
8.7 years ago by user230613 ▴ 380
5
votes
3
replies
5.2k
views
SomaticSniper VS Varscan2
varscan2 variant-calling somaticSniper
updated 2.0 years ago by 45k • written 8.7 years ago by ▴ 380
0
votes
1
reply
3.2k
views
rsem-calculate-expression prints out the help information when trying to run it
rsem
updated 8.9 years ago by 20 • written 9.0 years ago by ▴ 380
6
votes
4
replies
5.7k
views
GFF3 ID field: "Official" nomenclature
gff3
updated 9.2 years ago by 4.1k • written 9.7 years ago by ▴ 380
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