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2
votes
2
replies
1.5k
views
Java code for dual_synteny_plot from MCscanx generating error
synteny
updated 6.2 years ago by 161k • written 6.2 years ago by ★ 2.1k
3
votes
8
replies
9.3k
views
Nanopore data and downstream anlysis
nanopore
updated 6.2 years ago by 47k • written 6.2 years ago by ★ 2.1k
1
vote
9
replies
2.2k
views
What cigar to use to count reads with last base mismatch in Rsamtools?
rsamtools
6.2 years ago by MAPK ★ 2.1k
0
votes
3
replies
2.9k
views
How to use scanbamparam and CIGAR from Rsamtools to count specific reads?
r rsamtools
updated 6.2 years ago by 161k • written 6.2 years ago by ★ 2.1k
1
vote
8
replies
2.1k
views
How do we find the number of sequences with terminal mismatches?
bowtie bam
updated 6.2 years ago by ★ 4.9k • written 6.2 years ago by ★ 2.1k
8
votes
5
replies
3.0k
views
How can I calculate the number of sequences starting with different nucleotides using perl
fasta perl
updated 6.3 years ago by 49k • written 6.3 years ago by ★ 2.1k
4
votes
3
replies
1.2k
views
How do I normalize this data for plotting?
normalization
updated 6.3 years ago by 8.5k • written 6.3 years ago by ★ 2.1k
3
votes
2
replies
4.5k
views
How do I extract aligned reads from BAM file?
fastq bam
updated 6.3 years ago by 104k • written 6.3 years ago by ★ 2.1k
7
votes
5
replies
4.5k
views
How can I plot alignment between fastq reads and reference sequence?
alignment
updated 6.3 years ago by 26k • written 6.3 years ago by ★ 2.1k
3
votes
1
reply
892
views
How can we plot alignment distribution ?
alignment
updated 6.3 years ago by 88k • written 6.3 years ago by ★ 2.1k
6
votes
5
replies
1.7k
views
How do I subset gene loci with no difference from DeSeq2 output?
deseq2
updated 6.3 years ago by 13k • written 6.3 years ago by ★ 2.1k
0
votes
2
replies
1.7k
views
Bowtie alignment of multiple fastq files
bowtie
updated 6.4 years ago by ▴ 990 • written 6.4 years ago by ★ 2.1k
8
votes
9
replies
5.1k
views
How to remove reads from fastq flle that match to a set of reads in my fasta file?
fastq fasta contamination
updated 6.4 years ago by 47k • written 6.4 years ago by ★ 2.1k
5
votes
9
replies
6.3k
views
Counting nucleotide frequency using perl script
perl nucleotide_frequency
updated 6.4 years ago by 35k • written 6.4 years ago by ★ 2.1k
1
vote
1
reply
2.0k
views
How to plot read coverage using genomic ranges
coverage plot r
6.4 years ago by MAPK ★ 2.1k
5
votes
3
replies
44k
views
Extract the values by matching two rows of one dataframe with the two columns of another dataframe
dataframe match
updated 2.0 years ago by 43k • written 9.2 years ago by ★ 2.1k
3
votes
6
replies
4.4k
views
Trinity assembly error
rnaseq
6.5 years ago by MAPK ★ 2.1k
1
vote
1
reply
914
views
Possible evolutionary studies using whole genome and RNA-seq data
rnaseq
6.5 years ago by MAPK ★ 2.1k
4
votes
4
replies
2.6k
views
SRA data sets and runs
SRA rnaseq
6.5 years ago by MAPK ★ 2.1k
2
votes
1
reply
2.0k
views
Are there any tools to simulate mutations?
vcf mutation
updated 6.6 years ago by ★ 2.9k • written 6.6 years ago by ★ 2.1k
49
votes
10
replies
31k
views
9 follow
How is the design in DESeq2 work?
deseq2
updated 6.6 years ago by 104k • written 6.6 years ago by ★ 2.1k
8
votes
4
replies
3.5k
views
How do we plot KEGG pathway for multiple genes??
KEGG
updated 6.6 years ago by 35k • written 6.6 years ago by ★ 2.1k
0
votes
1
reply
2.4k
views
How to convert gene symbol to ncbi UID
UID entrez
updated 6.6 years ago by 27k • written 6.6 years ago by ★ 2.1k
3
votes
3
replies
2.9k
views
Extract dna sequences from given ids using R codes/package
R fasta
updated 6.6 years ago by 27k • written 6.6 years ago by ★ 2.1k
0
votes
1
reply
995
views
How do I extract list of sequences given their IDs ?
sequence
updated 6.6 years ago by 27k • written 6.6 years ago by ★ 2.1k
1
vote
6
replies
1.7k
views
Aligning multiple short reads with multiple long reference reads
alignment
6.7 years ago by MAPK ★ 2.1k
0
votes
0
replies
1.9k
views
Error generated by Rsamtools while importing the best base quality score from the bam file
R
updated 16 months ago by 43k • written 9.0 years ago by ★ 2.1k
20
votes
17
replies
17k
views
6 follow
Convert sequence file to fasta format using python
python
updated 6.7 years ago by 10k • written 6.7 years ago by ★ 2.1k
0
votes
1
reply
1.6k
views
Using DESeq2 for RNAseq analysis for two samples and a control with two replicates each
rnaseq
updated 6.7 years ago by 10k • written 6.7 years ago by ★ 2.1k
1
vote
3
replies
2.1k
views
Barcode and Adapter sequences in sRNAseq data
RNA-Seq
6.7 years ago by MAPK ★ 2.1k
1
vote
2
replies
1.6k
views
How to find adapter in sRNAseq Data
rna-seq
6.7 years ago by MAPK ★ 2.1k
1
vote
4
replies
1.9k
views
Copy number variation and its impact on allele frequency
CNV maf alle
6.8 years ago by MAPK ★ 2.1k
2
votes
5
replies
4.0k
views
What are the available methods to detect cross-sample contamination of NGS data?
QC NGS
updated 6.8 years ago by 20k • written 6.8 years ago by ★ 2.1k
7
votes
5
replies
14k
views
PCA using plink files
pca
updated 7.0 years ago by 10k • written 7.0 years ago by ★ 2.1k
1
vote
3
replies
1.5k
views
How to get the SNP statistics for Hg19
SNPs
updated 7.1 years ago by 161k • written 8.1 years ago by ★ 2.1k
3
votes
5
replies
2.3k
views
How to find refgene location for SNPs?
SNPs refGene
updated 21 months ago by 43k • written 8.3 years ago by ★ 2.1k
0
votes
1
reply
1.4k
views
verifyBamID generating error 'VcfFileException'
verifybamID
updated 7.4 years ago by ▴ 280 • written 7.7 years ago by ★ 2.1k
5
votes
2
replies
3.2k
views
R package for clonal expansion
clonal expansion bioconductor
updated 7.6 years ago by ★ 3.9k • written 7.9 years ago by ★ 2.1k
0
votes
0
replies
2.1k
views
What is the minimum number of SNPs required for Plink to calculate accurate Identity by descent (IBD value)?
IBD
7.7 years ago by MAPK ★ 2.1k
0
votes
3
replies
2.8k
views
How to calculate IBD for different ethnicity using plink
plink IBD
7.7 years ago by MAPK ★ 2.1k
1
vote
2
replies
5.0k
views
how do I create vcf4.1 instead of 4.2
VCF
updated 7.7 years ago by 13k • written 7.7 years ago by ★ 2.1k
0
votes
1
reply
1.8k
views
R script/package to plot mutation comparision in cancers
r
7.7 years ago by MAPK ★ 2.1k
6
votes
2
replies
4.8k
views
Tools to draw cell figures
cell
updated 7.7 years ago by 7.5k • written 7.7 years ago by ★ 2.1k
3
votes
3
replies
8.2k
views
How to change the SM tags of BAM files
BAM
7.7 years ago by MAPK ★ 2.1k
8
votes
7
replies
3.7k
views
How to extract reads from BAM file and shuffle in another BAM to simulate a new contaminated BAM file
NGS BAM
updated 7.8 years ago by ★ 2.9k • written 7.8 years ago by ★ 2.1k
0
votes
0
replies
1.8k
views
ContEst NGS sample contamination
NGS
7.8 years ago by MAPK ★ 2.1k
2
votes
2
replies
4.8k
views
VariantAnnotation installation error in R package
r
updated 7.8 years ago by ★ 1.8k • written 7.8 years ago by ★ 2.1k
5
votes
5
replies
2.1k
views
Looking for a Bioinformatics position with an MPhil/ MS in the US as a non-US passport holder
career
updated 13 months ago by 43k • written 7.9 years ago by ★ 2.1k
0
votes
0
replies
2.0k
views
Syntax for ContEst program to identify sample contamination
ContEst
updated 7.9 years ago by 20 • written 8.0 years ago by ★ 2.1k
0
votes
2
replies
2.8k
views
How do I run ConTest for sample contamination test?
contEst NGS
updated 7.9 years ago by 20 • written 8.1 years ago by ★ 2.1k
238 results • Page 3 of 5
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