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Error in ChIPQC(samples) : Unable to process. Each bam file must be associated with at most one peakset.
ChIP-Seq
updated 20 months ago by • 0 • written 3.3 years ago by ▴ 50
1
vote
1
reply
512
views
How to calculate all possible chromatin interactions in a given sample?
Hi-C ChIAPET
updated 2.2 years ago by ★ 1.9k • written 2.2 years ago by ▴ 50
0
votes
5
replies
1.8k
views
How to get parameter estimation r and p for Negative Binomial distribution using R?
R
updated 2.6 years ago by 82k • written 2.6 years ago by ▴ 50
3
votes
4
replies
2.6k
views
Which R function can be used for intersection of genomic coordinates from one file and check if the coordinates are within a specific range?
coordinates R Genomic
2.8 years ago by bioinfo89 ▴ 50
0
votes
1
reply
952
views
Express v_1.5.1 Error: Transcript IDs from MultiFASTA do not match with (SAM/BAM) file.
rna-seq read counts
updated 3.2 years ago by 5.8k • written 3.3 years ago by ▴ 50
0
votes
4
replies
821
views
ChIA-PET2 ERROR: The input file is neither a BAM file nor a SAM file.
Chiapet
3.4 years ago by bioinfo89 ▴ 50
1
vote
13
replies
1.6k
views
Chia-pipe cannot find the module pigz
next-gen ChIP-Seq ChIA-PET
updated 3.6 years ago by 43k • written 3.6 years ago by ▴ 50
0
votes
0
replies
638
views
What information does ChIA-PET2 tool trim statistics terms provide exactly?
ChIP-Seq
updated 3.9 years ago by 5.8k • written 4.0 years ago by ▴ 50
2
votes
2
replies
885
views
ChIA-PET2: Error: Don't have enough confident interactions to learn the model.
ChIP-Seq
updated 4.0 years ago by 5.8k • written 4.1 years ago by ▴ 50
7
votes
6
replies
4.6k
views
How to calculate average depth for each Amplicon in targeted amplicon sequencing?
next-gen bedtools
updated 5.0 years ago by ▴ 10 • written 6.1 years ago by ▴ 50
2
votes
1
reply
788
views
How to consider/get the g. positions for variants in introns?
SNP
updated 5.1 years ago by 16k • written 5.1 years ago by ▴ 50
7
votes
13
replies
12k
views
Merge vcf files with multiple samples into one vcf with all variants
SNP vcf
updated 5.1 years ago by 11k • written 5.4 years ago by ▴ 50
1
vote
2
replies
1.8k
views
How to convert chrM variants from NC_001807.4 version coordinates to NC_012920.1 coordinates?
SNP Assembly
5.5 years ago by bioinfo89 ▴ 50
2
votes
13
replies
3.6k
views
VCF validation error:Ref allele mismatch?
SNP assembly genome
updated 5.5 years ago by 16k • written 5.5 years ago by ▴ 50
3
votes
8
replies
3.5k
views
How to integrate GTEx data for variant annotation to understand the tissue specific expression?
SNP next-gen
updated 5.8 years ago by 7.5k • written 5.8 years ago by ▴ 50
0
votes
4
replies
2.4k
views
How to filter variant calls based on specific reference and alternate allele frequency ratio during variations calling?
SNP vcf
updated 5.9 years ago by 16k • written 5.9 years ago by ▴ 50
11
votes
16
replies
2.7k
views
How to extract unique paired end reads from a merged BAM file?
RNA-Seq
updated 5.9 years ago by 5.8k • written 6.0 years ago by ▴ 50
0
votes
7
replies
1.4k
views
How to extract the coordinates for the BRCT domain (BRCA1) nucleotide sequence?
sequence
5.9 years ago by bioinfo89 ▴ 50
3
votes
3
replies
1.3k
views
How to extract ampliconID from a bed file of each called variant from a vcf?
SNP next-gen
updated 6.0 years ago by 16k • written 6.0 years ago by ▴ 50
0
votes
0
replies
838
views
Should you retain all the alignments after primer clipping using Katana for variant calling or just consider the clipped ones?
next-gen
6.0 years ago by bioinfo89 ▴ 50
7
votes
15
replies
2.4k
views
How to extract forward and reverse primer coordinates for soft clipping?
next-gen
updated 6.1 years ago by 47k • written 6.1 years ago by ▴ 50
1
vote
5
replies
1.3k
views
How can you sort variants based on their positions from upstream to downstream?
snp
6.1 years ago by bioinfo89 ▴ 50
0
votes
1
reply
1.6k
views
How to convert intronic variants with IVS nomenclatures to their respective nucleotide positions?
genome SNP
updated 6.2 years ago by 20 • written 6.3 years ago by ▴ 50
0
votes
4
replies
1.3k
views
Can't create indexes using create_indexes_from_ucsc.pl RUM aligner perl script
RNA-Seq
6.5 years ago by bioinfo89 ▴ 50
4
votes
5
replies
4.8k
views
Primer3 error:./primer3_core: Input line with no '=':
software error
updated 6.6 years ago by ▴ 200 • written 6.6 years ago by ▴ 50
1
vote
6
replies
1.7k
views
RUM aligner - perl precedence error
RNA-Seq
updated 6.7 years ago by 54k • written 6.7 years ago by ▴ 50
1
vote
5
replies
1.9k
views
How to annotate novel SNPs using coding sequence position?
SNP
updated 6.8 years ago by 23k • written 6.8 years ago by ▴ 50
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