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11
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558
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8 follow
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Tool: [Crushing the bureaucracy in bioinformatics] Introducing Skymap-JupyterHub: accessing and utilizing reprocessed expression/ allelic read count profiles from >400,000 sequencing runs made simple
chip-seq snp rna-seq tool written 9 weeks ago by btsui • 270
0
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0
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92
views
0
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Genome-wide In Silico Multiple Restriction Digest
genome R sequence gene restriction digest written 1 day ago by shakuntala.mitra • 0
0
votes
1
answer
66
views
1
answer
Reading methylation without IDAT files downloaded from GEO
geo methylation minfi gene expression omnibus written 20 hours ago by halo22 • 110 • updated 35 minutes ago by Charles Warden ♦ 5.4k
4
votes
1
answer
31
views
1
answer
A constant problem with SAM file header
software error bowtie2 sam written 1 hour ago by popescuiofelia • 0 • updated 1 hour ago by h.mon ♦ 20k
0
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2
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2.7k
views
2
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Cuffmerge: GFF Error: duplicate/invalid 'transcript'
gtf_to_sam cufflinks rna-seq cuffmerge written 2.5 years ago by pld ♦ 4.7k • updated 1 hour ago by 2469296049 • 0
1
vote
1
answer
95
views
1
answer
How to merge two haploid samples (vcf, or g.vcf) into a pseudo-diploid?
genome written 11 days ago by Pistachio • 0 • updated 1 hour ago by genomax ♦ 57k
0
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0
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12
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0
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measure of residue dissimilarity in aligment (Phylogenetic discriminant)
alignment phylogenetics sequence written 1 hour ago by michau • 0
0
votes
2
answers
38
views
2
answers
Extracting a specific string pattern from a list of objects
R string subsetting data snp tcga written 2 hours ago by dodausp • 0 • updated 1 hour ago by jweile • 0
1
vote
0
answers
85
views
0
answers
toil stats under-reporting memory usage?
toil cwl written 22 hours ago by ionox0 • 160
376
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19
answers
29k
views
173 follow
19
answers
News: The Biostar Handbook. A bioinformatics e-book for beginners.
tutorial news training handbook written 22 months ago by Istvan Albert ♦♦ 77k • updated 2 hours ago by RamRS ♦ 18k
1
vote
0
answers
82
views
0
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Mapping query sequence with RNA-Seq
alignment rna-seq written 6 hours ago by skevalkumar • 0
1
vote
0
answers
49
views
0
answers
Can snakemake work with multiple nodes from HPC?
hpc snakemake written 2 hours ago by wangdp123 • 120
0
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22
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0
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Should cndas provided by Ensembl be filtered by ccds or biotype prior to running kallisto?
isoforms kallisto written 2 hours ago by holgerbrandl • 10
6
votes
2
answers
76
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5 follow
2
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How is it possible to have more than 25000 genes in counts file?
rna-seq sequencing written 4 hours ago by Batu • 100 • updated 3 hours ago by Friederike • 2.3k
0
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1
answer
39
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1
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Finding the number of aligned nucleotides per read in a sam file
cigar stings sam written 3 hours ago by ioannis • 20 • updated 3 hours ago by Pierre Lindenbaum ♦ 112k
0
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0
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26
views
0
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BED score in bedpe file: even though I filtered out by -q 255, why score 1 exists in resulting .bedpe file?
alignment rna-seq written 3 hours ago by Gene42 • 0
0
votes
0
answers
55
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0
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Plot of 2 replicates
R rna-seq written 3 hours ago by dianalves17 • 0 • updated 3 hours ago by RamRS ♦ 18k
0
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1
answer
95
views
1
answer
how can i use python in multiple sequence alignments?
alignment sequencing written 7 hours ago by sallyzaki70 • 0 • updated 4 hours ago by jrj.healey ♦ 7.5k
2
votes
1
answer
98
views
7 follow
1
answer
Bedtools intersect alternatives available
bedtools written 5 hours ago by Jeffin Rockey • 720 • updated 4 hours ago by Alex Reynolds ♦ 26k
1
vote
2
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86
views
2
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Use OrthoDB to retrieve the orthologs between human and bacteria
orthologs orthodb written 26 days ago by wangdp123 • 120 • updated 4 hours ago by Christophe Dessimoz • 480
0
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0
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47
views
0
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How to run eXpress RNA-seq quantification?
gene next-gen rna-seq written 4 hours ago by k.kathirvel93 • 120
0
votes
0
answers
141
views
0
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NovoPlasty is producing identical Assemblies
assembly novoplasty mitochondria written 9 weeks ago by micro32uvas • 0 • updated 5 hours ago by Biostar ♦♦ 20
0
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0
answers
47
views
0
answers
News: Phylogenetic comparative methods for studying diversification and phenotypic evolution (PCME01)
R news written 5 hours ago by oliverhooker • 60
3
votes
0
answers
60
views
0
answers
question about fast5 file and fastq file size
sequencing written 5 hours ago by D-Horse • 110
0
votes
0
answers
39
views
0
answers
miRdeep2 mapper error
mirdeep2 mapper.pl written 6 hours ago by nivya.james2016 • 0 • updated 6 hours ago by genomax ♦ 57k
1
vote
0
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80
views
0
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How to read VCF (v4.1) file? (student project) (samtools version 0.1.19)
vcf bcf samtools variantcalling written 8 hours ago by cedrickclarido • 20
0
votes
0
answers
36
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0
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GATK BaseRecalibrator No overlapping contigs found ERROR
reads gatk contigs baserecalibrator written 8 hours ago by marongiu.luigi • 330 • updated 7 hours ago by Pierre Lindenbaum ♦ 112k
0
votes
1
answer
86
views
5 follow
1
answer
ggplot2 problem with Date format
R ggplot lubridate datesinr written 8 hours ago by luzglongoria • 0
2
votes
0
answers
48
views
0
answers
Could I call peaks without input control for histone modification's data?
chip-seq written 7 hours ago by treywea • 0
1
vote
2
answers
118
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2
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Genomic coordinates from GENCODE annotation file
genomic coordinate gencode annotation file written 1 day ago by seta • 1.0k • updated 8 hours ago by Emily_Ensembl ♦ 16k
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