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1
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2
replies
2.0k
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how to extract human from mature.fa?
RNA-Seq
updated 6.2 years ago by 20 • written 8.3 years ago by ▴ 250
44
votes
12
replies
38k
views
9 follow
How to systematically check if a bam file is truncated
Exomeseq
updated 14 months ago by ▴ 170 • written 8.2 years ago by ▴ 250
0
votes
3
replies
5.4k
views
How to modify chr naming in bam file: chr -> just number
RNA-Seq
updated 6.6 years ago by 102k • written 6.6 years ago by ▴ 250
1
vote
6
replies
3.7k
views
Converting TCGA Bam files to fastq: Picard does not work!
wes sequencing
updated 6.7 years ago by • 0 • written 8.0 years ago by ▴ 250
0
votes
1
reply
1.7k
views
Comment: C: How to take reads from WGS fastq files in order to map it with Exome?
6.8 years ago by jonessara770 ▴ 250
2
votes
3
replies
1.7k
views
How to take reads from WGS fastq files in order to map it with Exome?
WGS
6.8 years ago by jonessara770 ▴ 250
0
votes
1
reply
8.1k
views
Comment: C: CNVkit for germline samples
6.8 years ago by jonessara770 ▴ 250
1
vote
1
reply
1.3k
views
my bam file contains both single-end and paired-end. How can I convert bam to fastq so that fastq contains only paired-end reads?
WES
updated 6.8 years ago by 166k • written 6.8 years ago by ▴ 250
0
votes
7
replies
1.8k
views
calculate haloplex coverage
next-gen
updated 6.9 years ago by ★ 2.0k • written 8.3 years ago by ▴ 250
6
votes
1
reply
4.7k
views
download WGS from dbGAP authorized with prefetch tools
wgs dbgap
updated 6.9 years ago by 88k • written 6.9 years ago by ▴ 250
0
votes
1
reply
4.2k
views
Comment: C: How can I download the fasta file of RepeatMasker UCSC table directly?
7.0 years ago by jonessara770 ▴ 250
0
votes
1
reply
4.2k
views
Comment: C: How can I download the fasta file of RepeatMasker UCSC table directly?
7.0 years ago by jonessara770 ▴ 250
1
vote
8
replies
4.2k
views
How can I download the fasta file of RepeatMasker UCSC table directly?
repeat TE Retrotransposable/repeat
7.0 years ago by jonessara770 ▴ 250
0
votes
1
reply
1.9k
views
Comment: C: interpretation of intronic variant detected by WES
7.0 years ago by jonessara770 ▴ 250
1
vote
3
replies
1.9k
views
interpretation of intronic variant detected by WES
WES
7.0 years ago by jonessara770 ▴ 250
0
votes
1
reply
1.3k
views
what is the volumn of data on GDC?
next-gen
updated 7.1 years ago by 89k • written 7.1 years ago by ▴ 250
6
votes
3
replies
3.6k
views
How to take in consideration UMI in WES pipeline?
WES
updated 7.1 years ago by 21k • written 7.1 years ago by ▴ 250
1
vote
1
reply
3.3k
views
errors in newCellDataSet Monocle function
single cell RNA-Seq
updated 7.1 years ago by ▴ 300 • written 7.2 years ago by ▴ 250
0
votes
1
reply
1.8k
views
Answer: C: grabix installation from github
7.3 years ago by jonessara770 ▴ 250
0
votes
1
reply
1.8k
views
Comment: C: grabix installation from github
7.3 years ago by jonessara770 ▴ 250
0
votes
1
reply
1.8k
views
Comment: C: grabix installation from github
updated 7.3 years ago by 152k • written 7.3 years ago by ▴ 250
0
votes
9
replies
1.8k
views
grabix installation from github
gemini
7.3 years ago by jonessara770 ▴ 250
0
votes
1
reply
2.1k
views
Comment: C: What are the step for germline analysis with CNVKit?
7.4 years ago by jonessara770 ▴ 250
2
votes
3
replies
2.1k
views
What are the step for germline analysis with CNVKit?
whole exome sequneing
7.4 years ago by jonessara770 ▴ 250
0
votes
1
reply
2.5k
views
Comment: C: best and easy Germline CNV caller with WES
7.4 years ago by jonessara770 ▴ 250
1
vote
3
replies
2.5k
views
best and easy Germline CNV caller with WES
whole exome seq
7.4 years ago by jonessara770 ▴ 250
0
votes
2
replies
2.5k
views
counts reads for miRNA mapped againt mirbase
mirna-seq
7.4 years ago by jonessara770 ▴ 250
0
votes
1
reply
3.7k
views
Comment: C: Converting TCGA Bam files to fastq: Picard does not work!
8.0 years ago by jonessara770 ▴ 250
0
votes
0
replies
3.7k
views
Comment: C: Converting TCGA Bam files to fastq: Picard does not work!
8.0 years ago by jonessara770 ▴ 250
0
votes
1
reply
4.4k
views
Comment: C: duplicate read names in TCGA raw bam file
8.2 years ago by jonessara770 ▴ 250
1
vote
4
replies
4.4k
views
duplicate read names in TCGA raw bam file
DNASeq
8.2 years ago by jonessara770 ▴ 250
0
votes
2
replies
2.2k
views
How many samples ones need to get a high power with RNA-Seq in paired-design experiment?
RNA-Seq
updated 8.2 years ago by ▴ 310 • written 8.2 years ago by ▴ 250
1
vote
1
reply
1.7k
views
how to convert mirna hsa.gff3 to hsa.gtf?
RNA-Seq
updated 8.2 years ago by 20 • written 8.3 years ago by ▴ 250
1
vote
3
replies
1.7k
views
Tips for miRNA-Seq analysis
RNA-Seq
8.3 years ago by jonessara770 ▴ 250
3
votes
1
reply
2.4k
views
why remove adapter just from 3' of the reads
RNA-Seq
8.3 years ago by jonessara770 ▴ 250
0
votes
0
replies
3.2k
views
Comment: C: Is this a bug of Cutadapt
8.3 years ago by jonessara770 ▴ 250
2
votes
5
replies
5.4k
views
best STAR options for miRNA mapping?
RNA-Seq
updated 8.3 years ago by 13k • written 8.3 years ago by ▴ 250
0
votes
0
replies
5.4k
views
Comment: C: best STAR options for miRNA mapping?
8.3 years ago by jonessara770 ▴ 250
0
votes
0
replies
1.8k
views
Comment: C: calculate haloplex coverage
8.3 years ago by jonessara770 ▴ 250
0
votes
1
reply
1.8k
views
Comment: C: calculate haloplex coverage
8.3 years ago by jonessara770 ▴ 250
0
votes
1
reply
1.8k
views
Comment: C: calculate haloplex coverage
updated 8.3 years ago by 152k • written 8.3 years ago by ▴ 250
0
votes
0
replies
1.4k
views
Threshold for variant detection by Haloplex
Target
8.3 years ago by jonessara770 ▴ 250
10
votes
2
replies
8.2k
views
convert STAR ReadsPerGene.out.tab to Deseq2 count table
RNA-Seq
updated 4.1 years ago by • 0 • written 8.3 years ago by ▴ 250
3
votes
2
replies
13k
views
ExAC PLI score calculation
DNA-Seq
8.4 years ago by jonessara770 ▴ 250
4
votes
4
replies
1.9k
views
Question about 1000 genome project
dnaseq 1000 Genomes
updated 8.4 years ago by 24k • written 8.4 years ago by ▴ 250
1
vote
1
reply
2.9k
views
annotate bed file with CCDS
DNASeq
updated 8.4 years ago by 36k • written 8.4 years ago by ▴ 250
0
votes
1
reply
1.8k
views
is there any R package to measure the efficiency of different exome capture kits?
DNA-Seq
updated 8.5 years ago by ▴ 620 • written 8.5 years ago by ▴ 250
0
votes
1
reply
5.1k
views
Comment: C: convert hg38 variant calls to hg19
8.5 years ago by jonessara770 ▴ 250
0
votes
1
reply
1.3k
views
what chipseq marker(s) we should use to study the effect of HDAC?
chipseq
updated 8.5 years ago by ★ 5.0k • written 8.5 years ago by ▴ 250
0
votes
0
replies
1.3k
views
How to specify --colsWanted in annovar filter-based annotation?
DNA-seq
8.5 years ago by jonessara770 ▴ 250
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