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428
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background nucleotide probability when finding TF binding sites in GRCh38
binding transcription factor
updated 19 months ago by 4.5k • written 19 months ago by ▴ 150
6
votes
5
replies
2.0k
views
finding compatible version of reference genome for use of GATK
bowtie2 GATK
updated 2.3 years ago by ▴ 230 • written 2.3 years ago by ▴ 150
2
votes
0
replies
2.0k
views
Answer: Answer: finding compatible version of reference genome for use of GATK
2.3 years ago by chrisclarkson100 ▴ 150
0
votes
0
replies
426
views
Best software for hQTL analysis with the aim of performing MR analysis
MendelianRandomisation hQTL
2.4 years ago by chrisclarkson100 ▴ 150
0
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1
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1.6k
views
Comment: Comment: formatting error: Calculate LD matrix from bgen file
2.7 years ago by chrisclarkson100 ▴ 150
1
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3
replies
1.6k
views
formatting error: Calculate LD matrix from bgen file
plink ld_matrix error
updated 2.7 years ago by 10k • written 2.7 years ago by ▴ 150
1
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0
replies
5.2k
views
Answer: A: Error when using Bedtools fisher on sorted bed files
3.4 years ago by chrisclarkson100 ▴ 150
1
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1
reply
1.1k
views
Answer: A: tabix indexing a GTEx variant file- ':' delimited
3.6 years ago by chrisclarkson100 ▴ 150
1
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4
replies
1.1k
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tabix indexing a GTEx variant file- ':' delimited
snp next-gen Assembly
3.6 years ago by chrisclarkson100 ▴ 150
0
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0
replies
1.1k
views
Comment: C: tabix indexing a GTEx variant file- ':' delimited
3.7 years ago by chrisclarkson100 ▴ 150
0
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0
replies
11k
views
Comment: C: Convert SNPs from GrCh38 to 37
3.7 years ago by chrisclarkson100 ▴ 150
0
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1
reply
2.1k
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Comment: C: Apollo not downloadable on on Mac OSX
updated 4.4 years ago by 43k • written 8.4 years ago by ▴ 150
0
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1
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2.1k
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Comment: C: Apollo not downloadable on on Mac OSX
updated 4.4 years ago by 43k • written 8.4 years ago by ▴ 150
0
votes
1
reply
1.9k
views
Comment: C: Common match hit between 1st and 2nd round PSI BLAST
updated 4.4 years ago by 43k • written 8.5 years ago by ▴ 150
0
votes
8
replies
2.1k
views
Apollo not downloadable on on Mac OSX
software error
updated 4.5 years ago by • 0 • written 8.4 years ago by ▴ 150
2
votes
4
replies
5.3k
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uploading bigwig file (converted from BED) to UCSC genome browser: Unrecognized format line 1
Assembly ChIP-Seq software error
updated 4.9 years ago by ▴ 40 • written 4.9 years ago by ▴ 150
0
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0
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5.3k
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Comment: C: uploading bigwig file (converted from BED) to UCSC genome browser: Unrecognized
4.9 years ago by chrisclarkson100 ▴ 150
0
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1
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5.3k
views
Comment: C: uploading bigwig file (converted from BED) to UCSC genome browser: Unrecognized
4.9 years ago by chrisclarkson100 ▴ 150
0
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0
replies
2.0k
views
Comment: C: MEME-Chip output lacks motif names
4.9 years ago by chrisclarkson100 ▴ 150
0
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1
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2.0k
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Comment: C: MEME-Chip output lacks motif names
4.9 years ago by chrisclarkson100 ▴ 150
1
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1
reply
2.2k
views
Am I correctly converting MotifDb PFMs to PWMs?
sequence PWM PFM
5.4 years ago by chrisclarkson100 ▴ 150
1
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3
replies
1.3k
views
imposing occupancy values from one bed file to different intervals
Assembly
updated 5.7 years ago by 20 • written 7.2 years ago by ▴ 150
0
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1
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3.6k
views
Comment: C: trying to reproduce heat map made via cBioportal using download data
5.9 years ago by chrisclarkson100 ▴ 150
2
votes
12
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3.6k
views
trying to reproduce heat map made via cBioportal using download data
RNA-Seq
updated 5.9 years ago by 87k • written 5.9 years ago by ▴ 150
0
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0
replies
3.6k
views
Comment: C: trying to reproduce heat map made via cBioportal using download data
5.9 years ago by chrisclarkson100 ▴ 150
0
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1
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3.6k
views
Comment: C: trying to reproduce heat map made via cBioportal using download data
5.9 years ago by chrisclarkson100 ▴ 150
0
votes
1
reply
1.5k
views
differential RNA seq analysis
rna-seq
updated 5.9 years ago by 8.9k • written 5.9 years ago by ▴ 150
0
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0
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1.8k
views
can one assess the how well the output of ChromHMM fits the data given to it?
ChIP-Seq ChromHMM
6.5 years ago by chrisclarkson100 ▴ 150
9
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7
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3.4k
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SRA has done away with SRX experiment directories on FTP site: The web page at ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByExp/sra/SRX/.…
software error
6.5 years ago by chrisclarkson100 ▴ 150
3
votes
1
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3.4k
views
Answer: A: The web page at ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByExp/sra
6.5 years ago by chrisclarkson100 ▴ 150
0
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1
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3.4k
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Comment: C: The web page at ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByExp/sra
6.5 years ago by chrisclarkson100 ▴ 150
5
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5
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2.4k
views
separating bed file into separate files for every 100000 base pairs
Assembly
6.5 years ago by chrisclarkson100 ▴ 150
2
votes
2
replies
1.0k
views
sam to bam header not being retained
sequence
updated 6.5 years ago by 161k • written 6.5 years ago by ▴ 150
0
votes
1
reply
1.3k
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PFM for CTCF in mm9 extremely difficult to find- or does one exist?
Assembly
updated 6.6 years ago by ★ 16k • written 6.6 years ago by ▴ 150
0
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0
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2.4k
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Comment: C: separating bed file into separate files for every 100000 base pairs
6.6 years ago by chrisclarkson100 ▴ 150
6
votes
3
replies
3.4k
views
gc content file for human genome large and difficult to parse into separate chromosome files
Assembly
updated 6.6 years ago by 13k • written 6.6 years ago by ▴ 150
0
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1
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2.5k
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Comment: C: sam2bed processing paired-end data and producing unexpectedly short intervals in
6.6 years ago by chrisclarkson100 ▴ 150
0
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0
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2.5k
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Comment: C: sam2bed processing paired-end data and producing unexpectedly short intervals in
6.6 years ago by chrisclarkson100 ▴ 150
0
votes
1
reply
2.5k
views
Comment: C: sam2bed processing paired-end data and producing unexpectedly short intervals in
6.6 years ago by chrisclarkson100 ▴ 150
0
votes
1
reply
2.5k
views
Comment: C: sam2bed processing paired-end data and producing unexpectedly short intervals in
6.6 years ago by chrisclarkson100 ▴ 150
0
votes
1
reply
2.5k
views
Comment: C: sam2bed processing paired-end data and producing unexpectedly short intervals in
6.6 years ago by chrisclarkson100 ▴ 150
0
votes
0
replies
2.5k
views
Comment: C: sam2bed processing paired-end data and producing unexpectedly short intervals in
6.6 years ago by chrisclarkson100 ▴ 150
0
votes
3
replies
2.5k
views
Comment: C: sam2bed processing paired-end data and producing unexpectedly short intervals in
6.6 years ago by chrisclarkson100 ▴ 150
0
votes
19
replies
2.5k
views
sam2bed processing paired-end data and producing unexpectedly short intervals in bed file....
alignment sam2bed
updated 6.6 years ago by 82k • written 6.7 years ago by ▴ 150
0
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1
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2.5k
views
Comment: C: sam2bed producing unexpectedly short reads in bed file....
6.6 years ago by chrisclarkson100 ▴ 150
0
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0
replies
2.5k
views
Comment: C: bowtie 2 mapping producing unexpectedly short reads in bed file....
6.7 years ago by chrisclarkson100 ▴ 150
0
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1
reply
2.1k
views
Comment: C: manipulating BED occupancy files' intervals
6.7 years ago by chrisclarkson100 ▴ 150
2
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0
replies
2.3k
views
Answer: A: Nucleosome positioning dataset
6.7 years ago by chrisclarkson100 ▴ 150
0
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1
reply
2.3k
views
Answer: A: bowtie: poor mapping with high quality reads
6.8 years ago by chrisclarkson100 ▴ 150
3
votes
7
replies
2.3k
views
bowtie: poor mapping with high quality reads
alignment bowtie
6.8 years ago by chrisclarkson100 ▴ 150
99 results • Page 1 of 2
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