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comments
0
votes
0
replies
175
views
Differentiate sequenced and imputed variants in BGEN files
imputation
bgen
ukb
4 months ago by
user230613
▴ 360
0
votes
0
replies
306
views
Calculating PRS from pre-computed PGS Catalog
GWAS
PRS
PGS
4 months ago by
user230613
▴ 360
10
votes
10
replies
4.9k
views
fgsea after deseq2, criteria for ranking DEGs.
GSEA
updated 21 months ago by
ATpoint
81k • written 22 months ago by
user230613
▴ 360
0
votes
0
replies
4.9k
views
Comment:
Comment: fgsea after deseq2, criteria for ranking DEGs.
21 months ago by
user230613
▴ 360
0
votes
1
reply
4.9k
views
Comment:
Comment: fgsea after deseq2, criteria for ranking DEGs.
22 months ago by
user230613
▴ 360
0
votes
1
reply
4.9k
views
Comment:
Comment: fgsea after deseq2, criteria for ranking DEGs.
22 months ago by
user230613
▴ 360
0
votes
1
reply
22k
views
Comment:
Comment: Gene Set Enrichment Analysis
2.0 years ago by
user230613
▴ 360
0
votes
0
replies
1.1k
views
Comment:
Comment: lfcShrink MA plot comparison
2.0 years ago by
user230613
▴ 360
0
votes
1
reply
1.1k
views
Comment:
Comment: lfcShrink MA plot comparison
2.0 years ago by
user230613
▴ 360
0
votes
1
reply
1.1k
views
Comment:
Comment: lfcShrink MA plot comparison
2.0 years ago by
user230613
▴ 360
2
votes
6
replies
1.1k
views
lfcShrink MA plot comparison
lfcShrink
deseq2
updated 2.0 years ago by
Michael Love
★ 2.6k • written 2.0 years ago by
user230613
▴ 360
0
votes
1
reply
1.2k
views
Comment:
C: convert CDS coordinates of a GTF to amino acid coordinates respect the resultant
3.7 years ago by
user230613
▴ 360
1
vote
3
replies
1.2k
views
convert CDS coordinates of a GTF to amino acid coordinates respect the resultant protein
protein coordinates
3.7 years ago by
user230613
▴ 360
9
votes
9
replies
3.7k
views
Extract sequence number "X" from multifasta file
fasta
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
user230613
▴ 360
2
votes
3
replies
5.7k
views
CIRCOS plot with Chip-Seq Data
ChIP-Seq
circos
updated 3.8 years ago by
bernatgel
★ 3.4k • written 8.6 years ago by
user230613
▴ 360
0
votes
1
reply
4.6k
views
Comment:
C: promoter position estimation
updated 4.3 years ago by
Ram
43k • written 8.3 years ago by
user230613
▴ 360
0
votes
0
replies
33k
views
Comment:
A: Multi-Sample Vcf To Phylogenetic Tree.
updated 4.3 years ago by
Ram
43k • written 8.3 years ago by
user230613
▴ 360
21
votes
10
replies
16k
views
9 follow
Extract reads within given region, and their mates
bam
samtools
updated 12 months ago by
dagsbio
▴ 20 • written 8.7 years ago by
user230613
▴ 360
4
votes
4
replies
5.1k
views
Does vcf-consensus support indels?
consensus
vcf-consensus
updated 6.0 years ago by
Johan Zicola
▴ 70 • written 8.1 years ago by
user230613
▴ 360
0
votes
0
replies
12k
views
Comment:
C: Difference between the Fasta files from UCSC and Gencode/Ensembl
6.0 years ago by
user230613
▴ 360
0
votes
1
reply
1.8k
views
Mate negative strand flag does not match read negative strand flag of mate
bam
validatesamfile
rnaseq
updated 6.2 years ago by
Santosh Anand
5.7k • written 6.2 years ago by
user230613
▴ 360
1
vote
1
reply
2.2k
views
consensus sequence of complex estructural variants
consensus
estructural variant
updated 23 months ago by
Ram
43k • written 9.1 years ago by
user230613
▴ 360
0
votes
0
replies
5.7k
views
Comment:
C: TPM VS FPKM VS TMM and K-mer specific expression quantification
6.3 years ago by
user230613
▴ 360
6
votes
9
replies
9.5k
views
6 follow
Intersect multiple bed and keep all fields
bed
bedtools
bedops
updated 17 months ago by
Ram
43k • written 8.7 years ago by
user230613
▴ 360
0
votes
1
reply
5.7k
views
Comment:
C: TPM VS FPKM VS TMM and K-mer specific expression quantification
6.4 years ago by
user230613
▴ 360
5
votes
1
reply
3.0k
views
GATK; Variant calling RNA-Seq best practices: bam processing steps
variant-calling
RNA-Seq
gatk
updated 5 months ago by
Ram
43k • written 6.5 years ago by
user230613
▴ 360
8
votes
4
replies
5.7k
views
TPM VS FPKM VS TMM and K-mer specific expression quantification
RNA-Seq
kmer
updated 6.7 years ago by
Rob
6.5k • written 6.8 years ago by
user230613
▴ 360
0
votes
1
reply
1.4k
views
Comment:
C: Specific sequence abundance using RNA-Seq
6.8 years ago by
user230613
▴ 360
3
votes
4
replies
1.4k
views
Specific sequence abundance using RNA-Seq
expression
RNA-Seq
updated 6.8 years ago by
Brian Bushnell
20k • written 6.8 years ago by
user230613
▴ 360
0
votes
1
reply
21k
views
Comment:
C: What Ngs Read Simulators Are Available For Paired-End Data?
6.8 years ago by
user230613
▴ 360
0
votes
1
reply
21k
views
Comment:
C: What Ngs Read Simulators Are Available For Paired-End Data?
6.8 years ago by
user230613
▴ 360
0
votes
0
replies
2.1k
views
Comment:
C: Subset of transcripts - Do I need to re-scale the TPM values?
6.8 years ago by
user230613
▴ 360
3
votes
3
replies
2.1k
views
Subset of transcripts - Do I need to re-scale the TPM values?
RNA-Seq
tpm
kallisto
6.8 years ago by
user230613
▴ 360
0
votes
1
reply
9.7k
views
Comment:
C: kallisto: strand-specific and fragment length calculation
6.8 years ago by
user230613
▴ 360
7
votes
11
replies
9.7k
views
7 follow
kallisto: strand-specific and fragment length calculation
RNA-Seq
kallisto
updated 6.9 years ago by
pmelsted
▴ 120 • written 6.9 years ago by
user230613
▴ 360
1
vote
3
replies
2.4k
views
bam-readcount tool: output zero coverage bases
bam-readcount
updated 7.0 years ago by
Chris Miller
22k • written 7.0 years ago by
user230613
▴ 360
2
votes
8
replies
2.4k
views
samstat and samtools differ in the number of MAPQ=0 reads/alignments.
bwa
samtools
samstat
7.0 years ago by
user230613
▴ 360
0
votes
0
replies
2.4k
views
Comment:
C: bam-readcount tool: output zero coverage bases
7.0 years ago by
user230613
▴ 360
0
votes
1
reply
2.4k
views
Comment:
C: samstat and samtools differ in the number of MAPQ=0 reads/alignments.
7.0 years ago by
user230613
▴ 360
0
votes
1
reply
2.4k
views
Comment:
C: samstat and samtools differ in the number of MAPQ=0 reads/alignments.
7.0 years ago by
user230613
▴ 360
0
votes
1
reply
2.4k
views
Comment:
C: number of MAPQ=0 reads or alignments in BWA MEM output
7.0 years ago by
user230613
▴ 360
0
votes
0
replies
2.4k
views
Comment:
C: samstat and samtools differ in the number of MAPQ=0 reads/alignments
7.0 years ago by
user230613
▴ 360
0
votes
1
reply
1.9k
views
Varscan2 filters AND usability of the tool - looking for opinions
varscan2
variant calling
varscan
somatic
7.0 years ago by
user230613
▴ 360
0
votes
1
reply
3.8k
views
Comment:
C: WES reads mapping: RNASeq or DNASeq aligner?
7.1 years ago by
user230613
▴ 360
5
votes
4
replies
3.8k
views
WES reads mapping: RNASeq or DNASeq aligner?
mapping
alignment
wes
updated 7.1 years ago by
cschu181
★ 2.8k • written 7.1 years ago by
user230613
▴ 360
7
votes
7
replies
6.4k
views
NGS data simulation: VarSim or BAMSurgeon?
simulation
varsim
bamsurgeon
updated 7.1 years ago by
d-cameron
★ 2.9k • written 7.1 years ago by
user230613
▴ 360
0
votes
0
replies
4.3k
views
Comment:
C: SomaticSniper VS Varscan2
7.1 years ago by
user230613
▴ 360
5
votes
3
replies
4.3k
views
SomaticSniper VS Varscan2
varscan2
variant-calling
somaticSniper
updated 5 months ago by
Ram
43k • written 7.1 years ago by
user230613
▴ 360
0
votes
1
reply
2.8k
views
rsem-calculate-expression prints out the help information when trying to run it
rsem
updated 7.3 years ago by
Biostar
20 • written 7.4 years ago by
user230613
▴ 360
6
votes
4
replies
3.8k
views
GFF3 ID field: "Official" nomenclature
gff3
updated 7.6 years ago by
Daniel Standage
4.1k • written 8.0 years ago by
user230613
▴ 360
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