methylpy 1.1.6

Fix issue in counting unconverted and converted basecalls when indel is present

add option --add-snp-info to include two additional columns in allc files to reflect genotype information

methylpy 1.1.5

Fix bugs when methylpy processes reads over 250bp long

methylpy 1.1.4

Fix bugs and add code for error handling

methylpy 1.1.1

• Fix chr prefix issue in allc-to-bigwig
• Change the default to False for --remove-clonal in processing pipeline
• Change cytosine position encoding to allow the processing long reads

1.1.0

Allows speeding up merge-allc using multiple processors
methylpy now uses multithread feature of samtools
Optimized the manipulation of allc index
Fixed bugs

1.0.11

fixed bugs in allc index

1.0.10

methylpy indexes allc files for faster accessing.

merge-allc function is optimized and runs faster.