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1
vote
2
replies
1.8k
views
how to extract human from mature.fa?
RNA-Seq
updated 5.4 years ago by 20 • written 7.5 years ago by ▴ 240
44
votes
12
replies
33k
views
9 follow
How to systematically check if a bam file is truncated
Exomeseq
updated 4 months ago by ▴ 170 • written 7.4 years ago by ▴ 240
0
votes
3
replies
5.0k
views
How to modify chr naming in bam file: chr -> just number
RNA-Seq
updated 5.8 years ago by 101k • written 5.8 years ago by ▴ 240
1
vote
6
replies
3.3k
views
Converting TCGA Bam files to fastq: Picard does not work!
wes sequencing
updated 5.9 years ago by • 0 • written 7.1 years ago by ▴ 240
2
votes
3
replies
1.5k
views
How to take reads from WGS fastq files in order to map it with Exome?
WGS
6.0 years ago by jonessara770 ▴ 240
1
vote
1
reply
1.2k
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 6.0 years ago by 163k • written 6.0 years ago by ▴ 240
0
votes
7
replies
1.6k
views
calculate haloplex coverage
next-gen
updated 6.0 years ago by ★ 1.9k • written 7.5 years ago by ▴ 240
6
votes
1
reply
4.2k
views
download WGS from dbGAP authorized with prefetch tools
wgs dbgap
updated 6.1 years ago by 84k • written 6.1 years ago by ▴ 240
1
vote
8
replies
3.7k
views
How can I download the fasta file of RepeatMasker UCSC table directly?
repeat TE Retrotransposable/repeat
6.1 years ago by jonessara770 ▴ 240
1
vote
3
replies
1.8k
views
interpretation of intronic variant detected by WES
WES
6.2 years ago by jonessara770 ▴ 240
0
votes
1
reply
1.1k
views
what is the volumn of data on GDC?
next-gen
updated 6.3 years ago by 88k • written 6.3 years ago by ▴ 240
5
votes
3
replies
3.2k
views
How to take in consideration UMI in WES pipeline?
WES
updated 6.3 years ago by 20k • written 6.3 years ago by ▴ 240
1
vote
1
reply
3.0k
views
errors in newCellDataSet Monocle function
single cell RNA-Seq
updated 6.3 years ago by ▴ 270 • written 6.4 years ago by ▴ 240
0
votes
9
replies
1.5k
views
grabix installation from github
gemini
6.4 years ago by jonessara770 ▴ 240
2
votes
3
replies
1.9k
views
What are the step for germline analysis with CNVKit?
whole exome sequneing
6.6 years ago by jonessara770 ▴ 240
1
vote
3
replies
2.3k
views
best and easy Germline CNV caller with WES
whole exome seq
6.6 years ago by jonessara770 ▴ 240
0
votes
2
replies
2.2k
views
counts reads for miRNA mapped againt mirbase
mirna-seq
6.6 years ago by jonessara770 ▴ 240
1
vote
4
replies
4.0k
views
duplicate read names in TCGA raw bam file
DNASeq
7.4 years ago by jonessara770 ▴ 240
0
votes
2
replies
2.0k
views
How many samples ones need to get a high power with RNA-Seq in paired-design experiment?
RNA-Seq
updated 7.4 years ago by ▴ 310 • written 7.4 years ago by ▴ 240
1
vote
1
reply
1.5k
views
how to convert mirna hsa.gff3 to hsa.gtf?
RNA-Seq
updated 7.4 years ago by 20 • written 7.5 years ago by ▴ 240
1
vote
3
replies
1.4k
views
Tips for miRNA-Seq analysis
RNA-Seq
7.5 years ago by jonessara770 ▴ 240
3
votes
1
reply
2.2k
views
why remove adapter just from 3' of the reads
RNA-Seq
7.5 years ago by jonessara770 ▴ 240
2
votes
5
replies
4.9k
views
best STAR options for miRNA mapping?
RNA-Seq
updated 7.5 years ago by 13k • written 7.5 years ago by ▴ 240
0
votes
0
replies
1.2k
views
Threshold for variant detection by Haloplex
Target
7.5 years ago by jonessara770 ▴ 240
10
votes
2
replies
7.6k
views
convert STAR ReadsPerGene.out.tab to Deseq2 count table
RNA-Seq
updated 3.3 years ago by • 0 • written 7.5 years ago by ▴ 240
3
votes
2
replies
12k
views
ExAC PLI score calculation
DNA-Seq
7.6 years ago by jonessara770 ▴ 240
4
votes
4
replies
1.7k
views
Question about 1000 genome project
dnaseq 1000 Genomes
updated 7.6 years ago by 23k • written 7.6 years ago by ▴ 240
1
vote
1
reply
2.7k
views
annotate bed file with CCDS
DNASeq
updated 7.6 years ago by 35k • written 7.6 years ago by ▴ 240
0
votes
1
reply
1.6k
views
is there any R package to measure the efficiency of different exome capture kits?
DNA-Seq
updated 7.7 years ago by ▴ 600 • written 7.7 years ago by ▴ 240
0
votes
1
reply
1.1k
views
what chipseq marker(s) we should use to study the effect of HDAC?
chipseq
updated 7.7 years ago by ★ 4.9k • written 7.7 years ago by ▴ 240
0
votes
0
replies
1.2k
views
How to specify --colsWanted in annovar filter-based annotation?
DNA-seq
7.7 years ago by jonessara770 ▴ 240
7
votes
5
replies
4.3k
views
extract sequence around snp
dnaseq
updated 7.7 years ago by ★ 2.4k • written 7.7 years ago by ▴ 240
3
votes
6
replies
6.1k
views
convert vcf file from GRCh38 to GRCh37 using picard LiftoverVcf
dnaseq
updated 7.7 years ago by 163k • written 7.7 years ago by ▴ 240
0
votes
3
replies
1.9k
views
run our pipeline on TCGA data
NGS
updated 7.7 years ago by ▴ 310 • written 7.7 years ago by ▴ 240
0
votes
1
reply
1.7k
views
MLSeq package error
RNA-Seq
updated 7.8 years ago by • 0 • written 7.9 years ago by ▴ 240
0
votes
1
reply
2.1k
views
How to compare SomaticSignatures package profiles with signatures listed by the Sanger Institute
somatic signature
7.9 years ago by jonessara770 ▴ 240
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