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Showing :
questions
76
votes
22
replies
54k
views
17 follow
How To Download All Sra Samples At Once ?
geo
sra
updated 13 months ago by
Ram
43k • written 10.2 years ago by
biorepine
★ 1.5k
63
votes
22
replies
64k
views
16 follow
How To Convert Gencode Gtf Into Bed Format ?
gtf
bed
updated 17 months ago by
leshaker
• 0 • written 11.5 years ago by
biorepine
★ 1.5k
46
votes
10
replies
115k
views
8 follow
Which Expression Units To Use, Fpkm Or Rpkm ?
fpkm
rpkm
rna-seq
updated 16 months ago by
Ram
43k • written 11.1 years ago by
biorepine
★ 1.5k
0
votes
0
replies
2.1k
views
How To Stitch Maf Blocks
maf
updated 4.9 years ago by
Biostar
20 • written 10.4 years ago by
biorepine
★ 1.5k
22
votes
9
replies
13k
views
8 follow
How To Extract Scores From Bedgraph File Using Bed Tools
bedtools
updated 5.2 years ago by
brianpenghe
▴ 80 • written 11.3 years ago by
biorepine
★ 1.5k
13
votes
4
replies
6.3k
views
Where Can I Download Most Updated Cnvs Of Hg19 ?
cnv
updated 5.4 years ago by
Biostar
20 • written 11.5 years ago by
biorepine
★ 1.5k
8
votes
13
replies
4.9k
views
9 follow
Where Can I Download Pirna (Piwi Rnas) Of Mouse (Mm9)
updated 2.1 years ago by
Ram
43k • written 10.5 years ago by
biorepine
★ 1.5k
0
votes
1
reply
2.5k
views
How to rescale aggregation plots of different ChIP-seq datasets using ngsplot?
ChIP-Seq
6.8 years ago by
biorepine
★ 1.5k
14
votes
5
replies
7.8k
views
SRX from SRR IDs
SRA
updated 2.2 years ago by
Ram
43k • written 9.4 years ago by
biorepine
★ 1.5k
0
votes
0
replies
1.6k
views
What is the best way to find broad ChIP-Seq peaks using a BAM file with 600 million reads?
ChIP-Seq
MACS
7.1 years ago by
biorepine
★ 1.5k
23
votes
10
replies
7.3k
views
6 follow
P Value Or Statistical Significance Of Real Peak Compared To Random Peak Overlaps
chip-seq
updated 7.5 years ago by
i.sudbery
19k • written 11.2 years ago by
biorepine
★ 1.5k
2
votes
7
replies
3.6k
views
How To Count Stand-Specific Paired-End Rna-Seq Reads Overlapping Known Protein Coding Genes ?
paired-end
rna-seq
overlap
updated 7.7 years ago by
Biostar
20 • written 10.4 years ago by
biorepine
★ 1.5k
0
votes
5
replies
2.5k
views
How to calculate fraction of RNA-Seq reads mapped to a customised genomic locations?
RNA-Seq
updated 7.7 years ago by
WouterDeCoster
47k • written 7.7 years ago by
biorepine
★ 1.5k
0
votes
2
replies
4.6k
views
Fr-Secondstrand Versus Fr-Unstranded Library Type In Tophat2
tophat2
rna-seq
updated 8.1 years ago by
Biostar
20 • written 10.3 years ago by
biorepine
★ 1.5k
4
votes
8
replies
3.9k
views
How To Liftover Genomic Regions From Dm3 (Drosophila) To Mm9 (Mouse)
mouse
liftover
updated 8.3 years ago by
Hugo A F Santos
• 0 • written 11.4 years ago by
biorepine
★ 1.5k
50
votes
21
replies
41k
views
11 follow
How Do You Justify Your Rna-Seq Expression Threshold (Fpkm/Rpkm) ?
rpkm
rna-seq
cutoff
fpkm
updated 2.5 years ago by
Ram
43k • written 11.3 years ago by
biorepine
★ 1.5k
12
votes
17
replies
7.0k
views
Does The New Tophat2 - Bowtie2 Pipeline Really Map 100% Of The Rna-Seq Reads ? Is This Real ?
rna-seq
samtools
mapping
tophat2
bowtie2
updated 2.4 years ago by
Ram
43k • written 11.4 years ago by
biorepine
★ 1.5k
1
vote
5
replies
2.6k
views
Where can I download chromatin state genomic co-ordinates of C.elegans ?
c.elegans
chromatin-states
updated 13 months ago by
Ram
43k • written 9.5 years ago by
biorepine
★ 1.5k
2
votes
5
replies
2.8k
views
How to overlap transcription factor binding sites with unstranded transcript promoters
promoters
unstrandedoverlap
tfbs
updated 3.1 years ago by
Ram
43k • written 9.5 years ago by
biorepine
★ 1.5k
2
votes
5
replies
2.5k
views
iGenome indexes for Chimpanzee and Bonobo (panTro3)
bowtie
tophat
updated 2.6 years ago by
Ram
43k • written 10.0 years ago by
biorepine
★ 1.5k
4
votes
8
replies
4.0k
views
6 follow
How Can Cufflinks Assemble De Novo Transcripts With Many Exons When They Have 0 Fpkm
rna-seq
cufflinks
fpkm
updated 2.4 years ago by
Ram
43k • written 11.3 years ago by
biorepine
★ 1.5k
2
votes
1
reply
2.8k
views
How to calculate phastcons scores for overlapping transcripts with different strands
phastcons
updated 10.0 years ago by
Asaf
10k • written 10.0 years ago by
biorepine
★ 1.5k
0
votes
1
reply
4.3k
views
How to prepare GSEA Pre-Ranked input file
GSEA
updated 2.6 years ago by
Ram
43k • written 10.1 years ago by
biorepine
★ 1.5k
1
vote
1
reply
3.3k
views
Does Any One Know Why And How To Calculate Tissue Specificity Score
rna-seq
updated 10.2 years ago by
Charles Warden
8.2k • written 11.3 years ago by
biorepine
★ 1.5k
9
votes
5
replies
5.6k
views
How To Split Chr11 Bam File In To 2 Halves ?
bam
split
updated 10.3 years ago by
Pierre Lindenbaum
161k • written 10.3 years ago by
biorepine
★ 1.5k
1
vote
2
replies
3.5k
views
How To Calculate Base-Level Read Coverage Of Each Transcript ?
rna-seq
coverage
updated 10.5 years ago by
Adrian Pelin
★ 2.6k • written 10.5 years ago by
biorepine
★ 1.5k
0
votes
1
reply
3.0k
views
Manual Transcriptome Reconstruction Using Rna-Seq Reads (Hg19)
rna-seq
cufflinks
updated 10.7 years ago by
Devon Ryan
104k • written 10.7 years ago by
biorepine
★ 1.5k
6
votes
18
replies
7.1k
views
How One Can Separate Noncoding From Coding Ucsc And Ensembl Transcripts
code
ucsc
ensembl
refseq
updated 2.5 years ago by
Ram
43k • written 11.0 years ago by
biorepine
★ 1.5k
30
votes
9
replies
3.9k
views
What If Authors Do Not Share Their Published Data ?
data
updated 11.0 years ago by
Mary
11k • written 11.0 years ago by
biorepine
★ 1.5k
2
votes
3
replies
2.1k
views
How Could I Display Two Connected Exons Of Different Chromosomes In Ucsc Browser
ucsc
bed
updated 11.1 years ago by
Obi Griffith
20k • written 11.1 years ago by
biorepine
★ 1.5k
6
votes
7
replies
3.6k
views
What If Your Polya+, 50Bp, Illumina_Hi-Seq_Paired-End_Rna-Seq Data Has ~86% Duplication (Fastqc) ?
rna-seq
fastqc
updated 11.2 years ago by
Sean Davis
26k • written 11.2 years ago by
biorepine
★ 1.5k
1
vote
0
replies
1.9k
views
List Of All Histone H3 Lys4 (H3K4) Methyltransferase Complexes
11.2 years ago by
biorepine
★ 1.5k
3
votes
2
replies
2.5k
views
How To Separate Transposon-Derived Repeats From Other Repeats
repeats
updated 11.3 years ago by
PoGibas
5.1k • written 11.3 years ago by
biorepine
★ 1.5k
0
votes
0
replies
2.0k
views
Interspecies Transition Of Transcription Factor Binding Sites
literature
updated 10 months ago by
Ram
43k • written 11.3 years ago by
biorepine
★ 1.5k
1
vote
2
replies
2.0k
views
How To Identify The Genomic Locations That Are Under Recent Positive Selection
mouse
11.3 years ago by
biorepine
★ 1.5k
0
votes
0
replies
4.0k
views
Cuffmerge Strange Warning Of Cufflinks Version
cufflinks
cuffmerge
11.4 years ago by
biorepine
★ 1.5k
3
votes
4
replies
2.6k
views
Where Can I Find The Genomic Co-Ordinates Of Known Pathogenic Loci In Both Mouse (Mm9) And Human (Hg19)
mouse
human
11.4 years ago by
biorepine
★ 1.5k
1
vote
2
replies
2.8k
views
How To Overlap Human And Mouse Genomic Regions (Ex: Chip-Seq Peaks)
human
mouse
chip-seq
updated 11.5 years ago by
Ido Tamir
5.2k • written 11.5 years ago by
biorepine
★ 1.5k
2
votes
2
replies
3.3k
views
How To Download All H3K27Me3 Chip-Seq Datsets Of Mouse At Once
chip-seq
mouse
11.5 years ago by
biorepine
★ 1.5k
6
votes
6
replies
5.0k
views
Macs Peaks Caveat ?
peak-calling
macs
updated 11.5 years ago by
seidel
11k • written 11.5 years ago by
biorepine
★ 1.5k
2
votes
5
replies
2.2k
views
Should I Use Strand Info, When I Overlap Snps With Genes ?
snp
updated 11.5 years ago by
Sean Davis
26k • written 11.5 years ago by
biorepine
★ 1.5k
41 results • Page
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