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The tepid-discovery program reported an error, how can i solve this error? #22

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wrn2333 opened this issue May 9, 2023 · 1 comment

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@wrn2333
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wrn2333 commented May 9, 2023

(TEPID) ruoruo@DESKTOP-5SC16P5:/mnt/d/tepid-discover$ tepid-discover -p 16 -c XXX.bam -s XXX.split.bam -n XXX -t TE.bed
Processing XXX
Running paired-end mode
Estimating mean insert size and coverage
Warning: coverage may not be sufficiently high to reliably discover polymorphic TE insertions
mean insert size = 356 bp, standard deviation = 67 bp
coverage = 1x
read length = 143 bp
Processing split reads
Finding discordant reads
Processing TE annotation
Finding deletions
***** WARNING: File /tmp/pybedtools.Ny7kTr.tmp has inconsistent naming convention for record:
contig_100 278 341

***** WARNING: File /tmp/pybedtools.Ny7kTr.tmp has inconsistent naming convention for record:
contig_100 278 341

Finding insertions
Error: no reads intersecting TEs found

How could I solve it

@jiyonghao-cpu
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coverage = 1x it is so low.

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