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questions
46
votes
44
replies
25k
views
9 follow
bash loop for alignment RNA-seq data
RNA-Seq
next-gen
alignment
updated 2.0 years ago by
Ram
44k • written 10.5 years ago by
Paul
★ 1.5k
9
votes
4
replies
1.7k
views
Data Mining from my Genomic Coordinates
ngs
vcf
database
sql
coordinates
updated 7.0 years ago by
Kevin Blighe
88k • written 7.0 years ago by
Paul
★ 1.5k
13
votes
8
replies
10k
views
Does Illumina Undetermined Fastq files contain barcodes
illumina
demultiplexing
barcodes
updated 7.0 years ago by
ptinto
▴ 200 • written 8.9 years ago by
Paul
★ 1.5k
12
votes
10
replies
6.7k
views
How to extract contigs from FASTA file which contains specific sequence
fasta
find
extraction
contig
updated 2.5 years ago by
Ram
44k • written 9.8 years ago by
Paul
★ 1.5k
5
votes
7
replies
3.0k
views
merge PE reads for Transcript De-Novo Assembly ??
RNA-seq
transcript
assembly
de-novo
updated 2.4 years ago by
Ram
44k • written 9.6 years ago by
Paul
★ 1.5k
14
votes
17
replies
17k
views
7 follow
shell script for bowtie/bwa alignment pair end reads
fastq
shell
bwa
bowtie
illumina
updated 2.5 years ago by
Ram
44k • written 9.7 years ago by
Paul
★ 1.5k
0
votes
0
replies
1.1k
views
How to interpret tandem SNP in
DNA-seq
ngs
varscan
variants
7.6 years ago by
Paul
★ 1.5k
6
votes
5
replies
3.7k
views
known unmappable or poorly sequenced regions in hg38
dna-seq
bed
ngs
updated 7.7 years ago by
igor
13k • written 7.7 years ago by
Paul
★ 1.5k
18
votes
14
replies
12k
views
7 follow
Extract specific reads from FASTQ files based on subsequence
fastq
bash
awk
updated 20 months ago by
Ram
44k • written 9.4 years ago by
Paul
★ 1.5k
13
votes
16
replies
6.5k
views
Mask or trim primer sequences in Amplicon sequencing
amplicon
mask
trimming
fastq
7.8 years ago by
Paul
★ 1.5k
5
votes
3
replies
1.8k
views
Variant Calling problem - find alternate heterozygous
vcf
variant
calling
heterozygous
updated 7.9 years ago by
Zaag
▴ 870 • written 7.9 years ago by
Paul
★ 1.5k
3
votes
1
reply
2.7k
views
How to select predefine transcript when annotate VCF
vep
snpeff
vcf
annotation
7.9 years ago by
Paul
★ 1.5k
13
votes
11
replies
4.2k
views
Variant Calling in Somatic mode
vcf
variants
varscan
SNP
sequencing
updated 7.9 years ago by
venu
7.1k • written 7.9 years ago by
Paul
★ 1.5k
1
vote
2
replies
2.8k
views
Illumina does not equal reads PF with real number of reads
illumina
fastq
basespace
8.1 years ago by
Paul
★ 1.5k
1
vote
8
replies
1.9k
views
Get gVCF file from genome coordinates
gVCF
coorinates
hg19
updated 8.1 years ago by
WouterDeCoster
47k • written 8.1 years ago by
Paul
★ 1.5k
3
votes
3
replies
2.6k
views
Compare my FASTA with Taxonomics group
taxonomics
blast
FASTA
NCBI
fasta
updated 2.2 years ago by
Ram
44k • written 8.8 years ago by
Paul
★ 1.5k
1
vote
4
replies
2.7k
views
How to show whole blast contig
blast
Embedding
updated 9.2 years ago by
h.mon
35k • written 9.2 years ago by
Paul
★ 1.5k
5
votes
2
replies
3.1k
views
How to compare assembly from Trinity and Velvet/Oases
denovo-assembly
RNA-Seq
Trinity
Velvet-Oases
updated 2.3 years ago by
Ram
44k • written 9.5 years ago by
Paul
★ 1.5k
3
votes
5
replies
3.9k
views
How to get scaffold information from Trinity?
trinity
scaffold
de-novo
transcript
updated 9.5 years ago by
Damian Kao
16k • written 9.5 years ago by
Paul
★ 1.5k
1
vote
3
replies
3.1k
views
Normalization reads between samples for aneuploidy detection
reads
gc content
normalization
aneuploidy
updated 2.5 years ago by
Ram
44k • written 9.7 years ago by
Paul
★ 1.5k
15
votes
25
replies
13k
views
9 follow
Calculating GC content from BAM file by BED file
cg content
bam
bed
bedtools
updated 2.4 years ago by
Harry
▴ 10 • written 9.8 years ago by
Paul
★ 1.5k
11
votes
6
replies
6.7k
views
Filter out specific reads from FASTQ files
De-Novo
FASTQ
filtering
Illumina
RNA-Seq
updated 2.6 years ago by
Ram
44k • written 9.9 years ago by
Paul
★ 1.5k
3
votes
3
replies
5.1k
views
Different coverage from bedtools and in vcf file - HELP PLEASE
bedtools
coverage
vcf
depth
updated 2.9 years ago by
Ram
44k • written 10.3 years ago by
Paul
★ 1.5k
1
vote
1
reply
2.8k
views
How to calculate all transcripts from cufflinks
RNA-Seq
FPKM
cufflinks
updated 3.0 years ago by
Ram
44k • written 10.4 years ago by
Paul
★ 1.5k
5
votes
8
replies
6.5k
views
After run Cufflinks - cuffdiff there is no information about isoforms, TSS, CDS...
RNA-Seq
cummeRBund
Cufflinks
updated 3.0 years ago by
Ram
44k • written 10.4 years ago by
Paul
★ 1.5k
5
votes
3
replies
2.4k
views
Difference between replicates and conditions in RNA-seq
RNA-Seq
cummeRbund
Cufflinks
updated 10.4 years ago by
Devon Ryan
104k • written 10.4 years ago by
Paul
★ 1.5k
2
votes
5
replies
3.2k
views
Help With Genotyping In My Vcf File
vcf
genotype
10.4 years ago by
Paul
★ 1.5k
4
votes
9
replies
6.2k
views
Using Bash For Gatk Pipeline
gatk
bash
script
10.7 years ago by
Paul
★ 1.5k
6
votes
11
replies
6.1k
views
How To Extract Information From Fastq Pair End Files
fastq
paired-end
updated 10.7 years ago by
Perry
• 0 • written 10.7 years ago by
Paul
★ 1.5k
29 results • Page
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