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Issues list

generated haplotagged BAM file
#206 by nikhita-damaraju was closed Apr 25, 2024 updated Apr 25, 2024
Error when running variant calling: "Expected three tokens in header line, got 2"
#67 by kvg was closed Jun 11, 2021 updated Feb 1, 2024
15
Could not read from reference fasta file.
#188 by sinha-shruti was closed May 18, 2023 updated May 18, 2023
1
Local PEPPER installation for variant calling
#179 by leonorpalmeira was closed Mar 24, 2023 updated Mar 27, 2023
4
No InDels amplicon data
#55 by husamia was closed May 13, 2021 updated Mar 27, 2023
16
Phasing into a single phaseset across targeted region of interest
#172 by smf96 was closed Mar 18, 2023 updated Mar 18, 2023
6
Calloc issue with docker even after allocating memory - margin polish
#180 by sofiabanu was closed Mar 18, 2023 updated Mar 18, 2023
1
pysam not working
#170 by Az513 was closed Mar 18, 2023 updated Mar 18, 2023
1
Seq2Seq_atn.py
#176 by ElaheA90 was closed Mar 18, 2023 updated Mar 18, 2023
1
DeepVariant Step Error: PythonNext() argument variant is not valid: Dynamic cast failed
#174 by weilu1998 was closed Mar 18, 2023 updated Mar 18, 2023
3
./. GQ=0 in gvcf where I have high coverage as homozygous reference
#175 by aguygarner was closed Mar 18, 2023 updated Mar 18, 2023
1
issue in running Pepper
#173 by tahashmi was closed Mar 18, 2023 updated Mar 18, 2023
1
.csi indexing when phasing
#169 by aguygarner was closed Mar 18, 2023 updated Mar 18, 2023
4
ERROR: basic_string::substr
#168 by chilampoon was closed Mar 18, 2023 updated Mar 18, 2023
4
optimal GPU type
#164 by COMInterop was closed Mar 18, 2023 updated Mar 18, 2023
1
not producing PEPPER_HP_OUTPUT_2.vcf.gz output for sample data pepper polishing (v.04)
#177 by plnspineda was closed Mar 14, 2023 updated Mar 14, 2023
g.vcf
#181 by shinlin77 was closed Mar 13, 2023 updated Mar 13, 2023
1
Margin-[E::hts_open_format] Failed to open file .bam
#161 by infotmatician was closed Sep 24, 2022 updated Jan 26, 2023
3
Depth differences between r0.5 and r0.8
#166 by VLeducq was closed Nov 29, 2022 updated Nov 29, 2022
3
Critical Vulnerabilities in the published Docker image
#171 by rberg2 was closed Oct 3, 2022 updated Oct 3, 2022
2
Can PEPPER deal with CLR sequencing data?
#139 by LiShuhang-gif was closed Sep 24, 2022 updated Sep 24, 2022
2
Setting Guppy version
#163 by vladimirsouza was closed Sep 24, 2022 updated Sep 24, 2022
5
undefined symbol: libdeflate_free_compressor
#153 by liuzhen51032 was closed Aug 24, 2022 updated Aug 24, 2022
3
ImportError
#159 by BrendaLee1 was closed Aug 24, 2022 updated Aug 24, 2022
1
RefCall vs. PASS
#160 by yifeng-evo was closed Aug 24, 2022 updated Aug 24, 2022
3
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